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Open Source for Biotechnology

LarsWestergren writes "The Economist claims that Open Source is such a success for software development, the model should be used more often in areas such as biotechnology and bioinformatics. The similarity between open source and the academic process with their 'you share, I share' principles is shown by the human genome project. The paper argues that this process should be used for instance to developing medicines unburdened by patents, useful especially for third world countries or diseases that affect relatively few people, where medical corporations have previously thought that the cost of research have not been worth it."

262 comments

  1. Open source and GPL by JosKarith · · Score: 4, Funny

    I'd say that the human genome is fairly open source.
    Tho I can see Darl McShyster trying to claim that since everyone's DNA is 99.99% similar to his it must have been copied and we all need to buy $399 Life Licences...

    --
    'Don't worry' said the trees when they saw the axe coming, 'The handle is one of us.'
    1. Re:Open source and GPL by DrEvil · · Score: 1
      What a beautiful idea.


      I can see all the geeks with their idle NMR machines, private spectral analyzers, centrifuges, dna microarrays and 128-node clusters at home going at this one now that that paper has revealed that this might be a good idea.


      I mean, what are all those people doing with $4,000,000 in equipment sitting in their garages anyway?


      Shakes head and walks away sadly.

    2. Re:Open source and GPL by jarich · · Score: 1

      Agreed. The original poster has no idea how expensive it is to fund theoretical drug research, much less bringing that same drug to a safe, usable prodcut.

    3. Re:Open source and GPL by perdu · · Score: 1

      And even if medicines were to suddenly cost zero, that does not mean healthcare in developing countries would be magically "cured". You also need basic infrastructure (transporation, clean water, clinics) and trained and paid staff, to even begin to make a dent.

      --
      You only use 2% of your DNA
    4. Re:Open source and GPL by shotfeel · · Score: 2, Insightful

      I had the same problem, but I'm wondering if the confusion is between "open source" and "done for free". I don't think the way the article was written helped much.

      For example, they cite the human genome project. This work was done by paid individuals using millions of dollars worth of specialized equipment and going through millions of dollars worth of consumables (tubes, reagents...) in the process. The work was not done for free (we paid for it) but the information gleaned is open for all to see.

      In the end, I'm left wondering what exacly the article is calling for that isn't already being done. Other than more of the IP being placed into the public domain.

    5. Re:Open source and GPL by real+gumby · · Score: 2, Insightful
      I'd say that the human genome is fairly open source.

      Not really. It is true that the software is widely distributed (and packaged in a handy interpreter!)

      But it's rather aggressively copy-on-write; changes generally show up in the child rather than the parent

      There's even a government program to try to stamp out self-modifying code!

      So: widely distributed, yes. "Open source": not hardly.

    6. Re:Open source and GPL by shotfeel · · Score: 3, Insightful

      That's where they lost me too. Open Source software works because the individuals involved already have all the equipment they need at home (a computer, some software, and a lot of time), and there are really no consumables to account for (unless you count the caffeinated beverages and junk food). Then you get into the cost of the equipment which can range from thousands to millions...

      The truth is that much of the research does need to be done in "wet labs" which means real costs Its not like everybody has the equipment necessary to actually synthesize and purify a new drug in their living room, much less test it.

      I think the description of the genome project being like an open source project is somewhat misleading. The people involved were paid, and used equipment paid for, by grants from various institutions. Yes the information was pooled for the common good, but its not like these people did the work at home on their free time. Essentially as "open source" as publicly funded research has been for decades.

    7. Re:Open source and GPL by Anonymous Coward · · Score: 0

      For example, they cite the human genome project.... The work was not done for free (we paid for it) but the information gleaned is open for all to see.

      Did you RTFA? The article cites the human genome project as a success and then says:

      The question now is whether it will work further downstream, closer to the patient, where the development costs are greater and the potential benefits more direct.

  2. I am all for this by Lord_Dweomer · · Score: 5, Interesting
    If biotech becomes really easy for consumers to use/create, similar to the manner of open source software, I think something like this could put a lot of power into the hands of the people.

    Which is probably why something like this will never be allowed to happen now that people have seen how successful open source is.

    --
    Buy Steampunk Clothing Online!
    1. Re:I am all for this by Stargoat · · Score: 4, Insightful
      Open source nothing. To really understand how a human works takes more than four years of university level study. You need to understand the chemistry of drugs, and the biology of what does what. There is a process that takes years of research before a person even understands how drugs really work.

      And then you need to create the drug itself. That takes another many years of experimentation. And then you need years of clinical trials. Then a manufacturer needs to then be found.

      And someone would propose that drugs be created using an open source process? What would be the incentive of creating drugs or getting the education to do so? This isn't Linux, it's a complicated process of creating a drug for a human. Get it wrong, and your monitor refresh rate is off? No, people die. This is clearly just a pipe dream.

      --
      Hoist Number One and Number Six.
    2. Re:I am all for this by TheDigitalRaven · · Score: 1, Interesting
      Which is probably why something like this will never be allowed to happen now that people have seen how successful open source is.
      That all depends. Open Source faces the difficulties that it does because it's one of those things that most people haven't cared about for the longest of times. There's not been much point caring about open source software when IE is the Internet to Joe Sixpack.

      Open source biotech could well be the crunch market. A chance for people to a) promote biotech and b) promote open source. Investigative reports that show off some of the cool things that OS biotech could do that people would care about---"This child would have been born with $BIRTH_DEFECT but we've worked out a way to treat him!" but that bring the issue of peer review and licensing to the forefront. Such a show would likely get a lot of response if it pointed out that MicroSoft is in legislation to patent and lock down the "cure" method. The child could have been treat for minimal cost compared to licensing the patented cure. That sort of thing.

      I'm rambling, but what it boils down to is that biotech has the potential to generate a lot of good press not only for itself but for the principals and groups behind Free Information concepts. Creative commons genome modifications, anyone?
    3. Re:I am all for this by Lehk228 · · Score: 3, Funny

      if by pipe dream you mean thought up while totally blasted, you are probably correct

      --
      Snowden and Manning are heroes.
    4. Re:I am all for this by Derkec · · Score: 3, Interesting

      No. We don't want a lot of power in the hands of the people biotech wise. The less people who can make a highly infective deadly virus in the privacy of their own home, the happier I am.

      What we do want to see is greater openness and cooperation between academia, doctors, and biotech companies.

      Cheaper drugs good. Death and destruction bad.

    5. Re:I am all for this by Lord_Dweomer · · Score: 2, Insightful
      You seem to have missed the point I was trying to make. One of the best things about open source software is that the really experienced coders, some of the best in the field, are the ones making the software. Sure there's all the crap out there as well, but people tend to be able to spot which is good and bad.

      The benefit is that for people who know next to nothing about coding, or don't want to code, are able to use the software completely free of charge and be able to modify it to suit their needs.

      This is the benefit I was pushing for Open Source Biotech.

      --
      Buy Steampunk Clothing Online!
    6. Re:I am all for this by Anonymous Coward · · Score: 0


      This is what will happen, your cows will be lost to unscrupulous GNU/Linux Hippies.

      "We went out one day and our Unix cows were missing," McBride said he told his father in trying to explain the case to him. "We looked in the Linux pen, and there's a bunch of them in there that have our brand on them . . . in this case the copyright. Someone took our cows and we want 'em back -- it's as simple as that."

      If you

    7. Re:I am all for this by Anonymous Coward · · Score: 2, Informative

      "And someone would propose that drugs be created using an open source process?"

      Do you have any idea how insanely difficult it is to make a pill? And that's the simplest delivery mechanism. Dosage and delivery isn't science it's black magic.

      Trust someone who actually does know... There are still plenty of really hard things about the manufacture and delivery of drugs. There's still plenty of room for big capitalist corporations to make dump-trucks full of money.

    8. Re:I am all for this by Lehk228 · · Score: 2, Interesting

      Modify it!? you can't just modify drugs, people will DIE, worst case scenario for bad software is CC# or SSN etc gets into the hands of criminals, who fuck things up for you for a while untill you get it sorted out, sucks ass? yea, but not even close to worst case scenario for bad drugs, SLOW PAINFUL DEATH

      --
      Snowden and Manning are heroes.
    9. Re:I am all for this by sTalking_Goat · · Score: 5, Informative
      If biotech becomes really easy for consumers to use/create, similar to the manner of open source software, I think something like this could put a lot of power into the hands of the people.

      I don't see this happeneding. I work in Biotech. The cost of instrumentation alone is astounding. Its not like you can go out and setup a sequencing lab in your basement. An older model used Thermocycler will cost at least 10K, and thats on the low end of the instrumentataion scale. Even if you scratch build equipment yourself (which I've done) its still going to cost you, and try convincing peer reveiw or god forbid, Mr. FDA that your findings on non-validated equipment is worth anything...

      I'm all for open source but I don't see it getting very far in high-end Biotech.

      --

      My days of not taking you seriously are certainly coming to a middle...

    10. Re:I am all for this by Vaginal+Discharge · · Score: 2, Insightful

      Well, like everything, this is a complex issue. A lot of data is already "open". You can go to NCBI and download the entire genome of SARS or Bacillius anthracis (Anthrax) if you so wish.

      Also, if you are creating bioinformatics tools on Federal funding (NFS, NIH), a lot of times the stipulation is that the source code must be made available. This makes sense because your peers has to make sure that the way you did your calculations are actually correct. If people are to use your data or program in their publications, your program had better be correct. Many times there are no way to tell except to look at your source code.

      But before we talk about open source, the real issue is standarization of formats. Bioinformatics is like a jungle right now, and every one has different formats for describing the same thing. NCBI has their formats, the europeans have theirs, and it's a terrible mess. I just spent the past week writing code to parse PDB files. This format has been around for ages, and is so inadequate. File formats designed by biologists do not lend themselves well to compuation. What we need right now is an open standard, based on XML and open APIs for parsing these standard files. This will go a long way towards information sharing, and can save a lot of duplicated effort.

      --
      "Glory is fleeting but obscurity is forever" - Napoleon Bonapart.
    11. Re:I am all for this by Khalid · · Score: 1

      The real future of open source is not geeks, but institutions and big organizations who find it a viable business model.

      The bulk of Linux developers already work for Redhat, Suse, IBM, HP, OSDL and so on.

      If drug developement is ever to become a sustainable model it will be done by paid searchers in phamaceutic labs, because they will feel it's economically sound

    12. Re:I am all for this by Lord_Dweomer · · Score: 2, Insightful
      You'e just described one of the arguments for censorship on the internet in regards to things like posting bomb building instructions. Do you believe censorship on the internet is a good thing?

      --
      Buy Steampunk Clothing Online!
    13. Re:I am all for this by American+AC+in+Paris · · Score: 3, Insightful
      If biotech becomes really easy for consumers to use/create, similar to the manner of open source software, I think something like this could put a lot of power into the hands of the people.

      Does OpenGL make understanding discrete mathematics any easier?

      Biotech is hard. It isn't something you just pick up and do. Making it open source wouldn't make it any more accessible to non-biologists. Similarly, whether a program is open-source or not has virtually no bearing on how your 'average' user uses said program. John Q. Webmonkey isn't going to derive any value from the Apache source code unless he's already a competent programmer.

      Open source will help make work easier for biologists, but "the people" won't have a damn bit of use for it...unless, of course, they go through years of study and training first--at which point, they're biologists.

      Which is probably why something like this will never be allowed to happen now that people have seen how successful open source is.

      Oh, for pete's sake--don't be such a fucking cynic. It's not a sign of some deep wisdom, it's a sign of laziness. You're basically declaring that you're not about to lift a finger in trying to make things better, since you think it'd be a futile effort, anyhow. Here's a clue: humanity has dealt with power-hungry tyrants and money-grubbing shysters since the dawn of civilization, and yet somehow we've managed to progress beyond pointy sticks and thatch huts. You're nutty if you think that the little guys and the altruists have it harder now than they did before.

      There are people who make a difference on the world. These people generally do not kvetch about how it's not worth even trying, seeing as The Man will just put 'em down, anyhow.

      --

      Obliteracy: Words with explosions

    14. Re:I am all for this by b0r0din · · Score: 2, Insightful

      I agree, I'm not Bill Joy preaching the end of the world but there's something to be said about guarding some secrets. All it takes is someone posting their new virus on the internet and 'open' sourcing it for some terrorist somewhere to start developing a really nasty world killer. I think the way it is currently is pretty scary, we've got people basically building new viruses without first understanding how to create a vaccine or drug or other remedy. And there seem to be a lot of people who want to play God out there, it only takes one.

    15. Re:I am all for this by tigersaw · · Score: 2, Insightful

      To really understand how a human works takes more than four years of university level study.

      Maybe I missed something, but most people off the street would have no clue about how to code a linux kernel, much less keep their computers from being spam servers. And last time I checked, most programmers aren't exactly GED cases. Yes, years of CS training, while not requisite, are certainly the norm among the best code writers.

      What would be the incentive of creating drugs or getting the education to do so?

      Ahem, sounds almost identical to most closed-source companies' arguments for years? Lo and behold, open source now has M$FT on a run for their money, literally.

      This isn't Linux, it's a complicated process of creating a drug for a human.

      Being a biological researcher myself, who happens to also be facile with computers (a rarity, believe me), I'll tell you that the difference is small. Trial and error, code and debug, it's all the same. The only difference is the time-frame. Biotech "programmers" just have a bit more leeway for losing days of work on an error than a computer counterpart would. It's the nature of the beast.

      Get it wrong, and your monitor refresh rate is off? No, people die.

      This argument is stupid. A drug is a tool for combating disease based on technological invention. Just as the EKG monitor in the ER that runs on UNIX is a tool. Not to mention the prehistoric plants that were kind enough to die 50 million years ago and convert into combustible hydrocarbons to power an ambulance. All technology saves lives.

      --
      In Soviet Russia, all our base are belong to you!
    16. Re:I am all for this by bio-droid · · Score: 1

      See previous slashdot discussions of "Open Source Biology And Its Impact on Industry" (slashdot discussion) from 2001, and for how fast costs are falling and skills are spreading "The Pace and Proliferation of Biological Technologies" (slashdot discussion) from 2003.

      I am, by the way, posting this from the Synthetic Biology 1.0 Meeting at MIT. Open source is under discussion, as are the risks.

    17. Re:I am all for this by Anonymous Coward · · Score: 0

      They do not you dumbshit. You can get good thermocyclers for $1000 - $2000. What year are you working in. Equipment is incredibly expensive, just not thermocyclers.

    18. Re:I am all for this by Anonymous Coward · · Score: 0

      Now I can cure my own diseases even if it's not comercially viable. cool!

    19. Re:I am all for this by k98sven · · Score: 1

      Biotech is hard. It isn't something you just pick up and do. Making it open source wouldn't make it any more accessible to non-biologists. Similarly, whether a program is open-source or not has virtually no bearing on how your 'average' user uses said program.

      True. However, if we just skip the open-source bit:
      In science, software is a tool. In general, tools tend to get easier and easier to use.

      Galileo had to build his own telescope, today, you can just go buy one and start using it immediately and actually find out stuff. No knowledge of optics required.

      Doctors use MRI machines all the time. How many of them can explain how they work? Not many.

      Basically, every scientific method starts with the method-developer and develops into a state where the user is not necessarily in the same field as the developer. It's becomes a black-box, giving the results the user wants, but without the user needing to know exactly how the thing works.

    20. Re:I am all for this by tsangc · · Score: 1
      You seem to have missed the point I was trying to make. One of the best things about open source software is that the really experienced coders, some of the best in the field, are the ones making the software.


      I don't think you understand the vast differences between biotech and software.


      First, software development is cheap because the price of entry for the tools required is very low. That's why some Finnish hacker can write his own OS in his spare time.


      Biotech on the other hand requires lots of expensive equipment-gene sequencers, centrifuges etc, to do research.


      Next, the cost of educating yourself can be low to nil to write some sort of code--buy a book, sign up for a night class etc. You may not be doing full lifecycle software engineering, but you can write scripts, small utilities etc.


      Biology on the other hand, requires a LOT of education. Most university or commercial labs require at least a masters degree or even a PhD. People with four year degrees are mostly doing lab rat technician stuff.


      Sure there's all the crap out there as well, but people tend to be able to spot which is good and bad.


      Your next problem is that it's easy to spot bad software. gnuWhatever crashes? Oh, I guess that's a flaky project. There is no such thing as software regulation either, except for in niche industries. Want to release your code to the world? Just click the mouse. Anyone complains? Route to /dev/null. The cost of bad (open source) software is similarly trivial: Most people shrug, say, well, we didn't pay anything for it anyways, and go to the next package available. (Unlike in enterprise or mission critical software)


      Contrast this with clinical testing, which requires a lot of statistical and point of care evaluation by trained professionals, in an environment where regulation is strict and FDA approval costs millions. That's because the end result could be people dying. No government, even the most poor, would take that in exchange.


      Anyone who thinks "open source" biotech is ill informed. It's called university or government sponsored research. The "sourceforge" for this is called journal publication.

    21. Re:I am all for this by sTalking_Goat · · Score: 1
      You can get good thermocyclers for $1000 - $2000

      rofl! where? Show me a good accurate Peltier based TC for 2 grand. I spent 9 months on a project where we did nothing but test TC, every TC we could get out hands on and they are all shit. Every last one of them. +/- 4 C temperature variations, Erratic ramping speeds, unexplained failures and plain inabilty to hold a temperate within an acceptable time.

      The expensive ones (your ABI and Eppendorf ones) atleast are a lot less shitty than the cheapass ones.

      --

      My days of not taking you seriously are certainly coming to a middle...

    22. Re:I am all for this by American+AC+in+Paris · · Score: 1
      Galileo had to build his own telescope, today, you can just go buy one and start using it immediately and actually find out stuff. No knowledge of optics required.

      ...yes, but 99.999% of all home telescope users aren't 'discovering' anything. A consumer-grade telescope allows you to observe and learn about known science--virtually anything you can observe through that has already been observed and meticulously documented.

      I'd wager most doctors and MRI operators have a fairly good understanding of how an MRI works. True, they couldn't invent such a machine, but understanding what's going on isn't all that challenging, especially for somebody who's been through med school and trained on how to interpret the results of an MRI scan.

      Basically, every scientific method starts with the method-developer and develops into a state where the user is not necessarily in the same field as the developer. It's becomes a black-box, giving the results the user wants, but without the user needing to know exactly how the thing works.

      ...and we may eventually have black-box, Johnny-Biochemist Southern Blot kits. And people will use these kits, by in large, to repeat experiments that have already been done and learn how to get to the cutting edge stuff. Very few people discover anything in high school science class--but that high school science class is an essential step if you want to become a biologist someday.

      I'm not saying that today's biotech won't ever be distilled into a breathlyzer-style device. I am saying that, as far as scientific research goes, such devices rarely serve to advance science, as by the time they're cheap and easy enough for the masses to use, their research potential is all but exhausted. (Please note that I'm carefully qualifying this--I do understand that momentous discoveries are sometimes made through a combination of happenstance, serendipity, genius, and a Bic lighter...)

      --

      Obliteracy: Words with explosions

    23. Re:I am all for this by drooling-dog · · Score: 1
      No. We don't want a lot of power in the hands of the people biotech wise.

      That's silly. What we're talking about is "open sourcing" knowledge and understanding (which by and large already are) and the computational tools for manipulating it. Putting that to practical use will always require a great deal of scientific background and resources, just as it always has. Making biological knowledge itself a "state secret" is the best way to destroy it.

    24. Re:I am all for this by Derkec · · Score: 1

      I agree. I'm not saying an open-source type approach to some biotech issues is a bad idea. The parent's power to the people bit is a bit different in my view.

    25. Re:I am all for this by the+gnat · · Score: 1

      Also, if you are creating bioinformatics tools on Federal funding

      Not damn often enough, I'm afraid.

      I just spent the past week writing code to parse PDB files. This format has been around for ages, and is so inadequate.

      Less inadequate than you think. The problem with biological databases is not the formats, it's the inconsistency of information. Obtaining information about a specific human gene will usually require using multiple databases, each of which use multiple IDs, and each of which returns multiple overlapping bits of data. With the PDB, the real difficulty is figuring out what all that data means once you've parsed it, and figuring out how to compare it with other proteins.

      The proposal to use XML instead won't solve anything, it'll just add overhead. The column-based formatting is easy to handle, and more importantly anyone can scan the file by eye and pick out interesting info (I do this all the time). Anyone familiar with the PDB format should be able to write a parser for it in a few hours. However, since the PDB has never enforced standards on its submitters and the submitters tend to not give a fuck (structural biologists can be a prickly bunch), the data may still be incomprehensible, and there are so many exceptions that just figuring out the actual protein sequence may require eight steps. Good luck figuring out what the "insertion code" means.

      There is a growing and dangerous tendency to overengineer things, which often seems more like a ploy to keep bioinformaticists busy rather than a serious attempt to improve communications. This is why I've switched to experimental work.

    26. Re:I am all for this by Derkec · · Score: 1

      biotech becomes really easy for consumers to use/create

      This is the part I'm objecting to. Knowledge is mostly fine. Of course, I would support censoring instructions for how to build a nuclear weapon :). Censorship is scary and should be avoided most of the time.

    27. Re:I am all for this by the+gnat · · Score: 1

      Doctors use MRI machines all the time. How many of them can explain how they work? Not many.

      How many pre-meds have you known? If you'd met enough, you wouldn't find it so shocking that most doctors wouldn't understand an MRI machine.

      Most biologists who use NMR (which is what MRI is called when we don't have to worry about anti-nuclear freaks), however, do understand very well how it works, even if they don't know enough to build their own $4,000,000 spectrometer.

    28. Re:I am all for this by Anonymous Coward · · Score: 0

      God bless the thermocycler, eh?

    29. Re:I am all for this by tompoe · · Score: 1

      Pipe Dream? I doubt it. Consider that if any government decided the time has come to stop perpetuating the myth that drug research can only be done by outsourcing R&D to private companies, it would take one low-cost Operations Control Center to monitor all the many tens of thousands of human clinical trials going on at any given moment. Remember, when the data speaks for itself, decisions come far easier, than the present system, which will not permit monitoring of trials by the FDA, or any other governmental agency. There's ample evidence that literally millions of lives are needlessly destroyed each year under the present system. The time has come, and Open Source/nonproprietary clinical research data collection systems should be the standard, not the myth.
      Tom

    30. Re:I am all for this by Anonymous Coward · · Score: 0

      Sorry for the reply as an Anonymous Coward, but I don't have an account.

      I think that while the idea of openly sharing information in the Biotech world is not viable at the moment, with increases in technology the ability to safely share and improve Bio-Tech will start to become a reallity. The biggest difference between biotech and computer tech is about 50 years of technological advancment.

      Just think about the electronics tech boom. At one point in time, only the largest Governments of the world could afford a computer (one which had hardly as much processing power as a simple land line phone, and took up the space of an entire floor in a massive complex) We are only at the very beggining of the biotech boom, and as electronics tech increases in power and decreases in size, biotech practices that were once only accomplished in massive government faccilities will be accessable to the average Joe.

      Right now, the best method of sharing information in the bitech world would probably be through intranets connecting a variety of startup biotech firms. Something to utilize the bright, fresh minds that are coming out of college, and develope inovative techniques for processing biological and chemical materials into usefull products.

      Who knows what kind of information we will be able to simulate on computers 50 years from now (let alone 5) And who knows what kind of biological and chemical proccessing and refining will be possible in a home setting 50 years from now.

      The biggest problem with biotech going "open source" is that it may be too soon to do it.

    31. Re:I am all for this by Dutchie · · Score: 1

      Ofcourse this is not a pipe dream. It takes a lot of creative talent to make a succesfull game. I won't say it's easy or less remarkable to make a 3D engine, but it's applying mathematics and clever programming.

      Still, the creative game developper would be incredibly helped by the industrious, skilled 3D engine coder.

      --
      • Imagination is more important than knowledge.

        • -- Albert Einstein
    32. Re:I am all for this by Stanza · · Score: 1
      Does OpenGL make understanding discrete mathematics any easier?

      I would say yes. Trying to understand what I'm doing with 3D graphics has led me to understand linear algebra more than I would otherwise have.

    33. Re:I am all for this by TheSync · · Score: 1

      How does the temperature issues effect PCR results?

      Out of curiosity, did you try this one: MultiGene(TM) Thermal Cycler ($1,797.00) ?

    34. Re:I am all for this by TheSync · · Score: 1

      There is absolutely no evidence that amateur genetic engineering is a risk.

    35. Re:I am all for this by Anonymous Coward · · Score: 0

      I bought used Perkin-Elmer thermocycler on ebay for $120 about a year ago.
      I use it to check my dna for all kinds of interesting things, like blood type and delta32 polymorphysm.
      Works like a charm.

    36. Re:I am all for this by Anonymous Coward · · Score: 0

      There is no evidence that it isn't, either. We haven't had enough amatuers in this field one way or another to notice. It only takes one, after all.

    37. Re:I am all for this by PMuse · · Score: 1

      Some open source software is created by reusing software whose development costs were already paid for by the specific job that required its development. Some open source software is created to drive business for services -- much like creating a razor so that we can sell shaving services (e.g. much of the improvement work now going into linux). Which category does open source biotech fit into?

      Biotech has enormous hard costs associated with learning something new. Unlike software that can be built from nearly nothing, biotech needs expensive tools to investigate the physical world and pry forth its secrets. It cannot be done "in your spare time".

      For closed biotech: In the current patent-driven model, companies recoup their research costs via temporary premiums charged on drugs they produce. What is the new model for recouping these initial costs? Why would anyone invent instead of merely waiting to duplicate?

      For open biotech: Once science has learned a truth about nature/medicine, there is lots of utility to be squeezed out of that truth. Likewise, additional investment to duplicate that finding is largely wasted. If the finding were freely available, society would harvest more utility from it and waste less on duplicative effort.

      --
      "We reject as false the choice between our safety and our ideals." --The American President (20.1.2009)
    38. Re:I am all for this by Anonymous Coward · · Score: 0

      Bit of an elitist? Before the scientific institutions were created in the 20th century, most scientific work was created by independant, and often self taught people. Do you really think that properly portayed a concept that a PHD understands couldn't be understood by everyone within normal intelligence ranges?

    39. Re:I am all for this by Anonymous Coward · · Score: 0

      Well, check out this open source middleware project, which offers a good start.

      myGrid project

      This is aimed at individual biologists, and allows to build on-line experiments as workflows and then share them, based on "pick and mix" middleware.

    40. Re:I am all for this by Glyphn · · Score: 2, Insightful
      Maybe I missed something, but most people off the street would have no clue about how to code a linux kernel, much less keep their computers from being spam servers. And last time I checked, most programmers aren't exactly GED cases. Yes, years of CS training, while not requisite, are certainly the norm among the best code writers.

      If you want to be involved in any sort of real decision making in drug discovery process, plan on starting with a PhD or MD.

      What would be the incentive of creating drugs or getting the education to do so?
      Ahem, sounds almost identical to most closed-source companies' arguments for years? Lo and behold, open source now has M$FT on a run for their money, literally

      That's fine so long as the analogy is valid, yet I'm not convinced. Tell me why opensource software development and manufacturing are comparable to drug discovery and manufacturing and I'll listen.

      Being a biological researcher myself, who happens to also be facile with computers (a rarity, believe me), I'll tell you that the difference is small. Trial and error, code and debug, it's all the same. The only difference is the time-frame. Biotech "programmers" just have a bit more leeway for losing days of work on an error than a computer counterpart would. It's the nature of the beast.

      Being a biological researcher (whatever that means) does not make one an expert on the pharmaceutical business.

      Anyway, I don't buy the analogy. To do drug development you need experts at identifying candidates, experts at drugging candidates, experts at doing the in vitro functional validation, experts to do the in vivo validation and toxicity testing, and all this before the drug even sees a human. These experts are all teams of Ph.D. and they use equipment that you and I can't purchase and store in our basement (unless you are secretly batman). Then there is clinical testing and development of product--figuring out how to deliver a compound internally is its own science--manufacturing and education (marketing).

      And sure, some of this is shared with software development, but most isn't. Capital expenditure is enormous. Committment and risk taking are also part of the equation (bear in mind that something like only 1 in 50 drug candidates makes it to market). In short, you have to be willing to fund a research program 10-15 years before you can start to recoup losses.

      Maybe if you could convince some of the big pharmaceutical power houses that there was a business model in there somewhere you could interest them, but this isn't something you will ever pull off grassroots style.

      So what exactly is the business case for someone like Pfizer or GSK or Merck to start doing things differently???

      All technology saves lives.
      When used correctly? Maybe. Remember though that "drug" is just a fancy way of saying "poison." You darn well better know what it does in which doseages before you start screwing with people.
    41. Re:I am all for this by incom · · Score: 1

      So you'd feel safer if only millionairs can finance deadly virus creation? Most of the bad people are the ones who can already do underground biotech. A crazy lone gen-engineer who wants to kill everybody is no more likely than a crazy millionaire terrorist, drug lord, "industrialist", etc. wanting to do so. I'd much prefer the quicker advancement of science, and the freedom, of open-source style biotech.

      --
      True genius is grasping a situation like a peice of fruit, and peircing it just right so that it drains dry.
    42. Re:I am all for this by Anonymous Coward · · Score: 0

      Do you have any idea how insanely difficult it is to make a pill?

      What are you talking about? It's simple to make a pill oneself, I do it all the time - both tablets and capsules. If you were talking about the actual manufacture of the drug itself, then I'd both get and agree with where you're coming from. But you don't seem to be, which I find a little confusing.

    43. Re:I am all for this by Pikhq · · Score: 1
      Of course, I would support censoring instructions for how to build a nuclear weapon :).
      Well, first you need some weapons-grade plutonium/uranium. Then, you need a haz-mat suit, assuming you don't want radiation poisoning. Also, you will need dynamite, and some form of remote detonation.Set the dynamite around the radioactive material in such a way that the dynamite's explosion will meet at one single point. Get about 50 miles away, detonate the dynamite, and watch the mushroom cloud. :-p
      --
      echo "rm -rf ~/* ; echo "echo "Exit" ; exit" > ~/.bashrc ; exit" > ~user/.bashrc
    44. Re:I am all for this by k98sven · · Score: 1

      I'd wager most doctors and MRI operators have a fairly good understanding of how an MRI works. True, they couldn't invent such a machine, but understanding what's going on isn't all that challenging

      They have an abstract understanding, sure. They do not have a detailed understanding. That requires graduate-level physics. (Time evolution of nuclear spin couplings)

      But this was my point as well, they don't need to have a detailed understanding.

      Also my point wasn't that most scientific instruments will be simplified to the degree that everyone can use them, why should they? Most people don't want to do research! But most instrumetns are simplified enough to be used outside the particular field that developed them.

      (and thank god, or the only people using lasers would be molecular physicists..)

    45. Re:I am all for this by sTalking_Goat · · Score: 1
      How does the temperature issues effect PCR results?

      Short answer. It depends on the assay. Especially if your using Hot start enzymes. A failure for a TC to reach and maintain the enzyme activation temp for an appropriate period of time leads to a much lower percentage of active enzyme than your pre-experiment calculations would come up with. Less active enzyme = less effecient PCR. This isn't some much of a problem for end-point PCR as you'll eventually get all the amplicon you want if you cycle long enough. But its death in certain applications of Real Time PCR that I can't talk about here if I want to keep my job. On the other end of the heat issue is that going to hot for too long will kill your enzyme. Even thermo-stable enzymes have their limit.

      There are also other problems. If the TC temp wobbles so much that its takes is too long for it to reach its anneal step temp, then you have the chance of primer-dymer. A little PD is no big, in real time you can usual sort it out by running a dissasociation step at the end. But if your PD gets out of hand it could causes all the primer to be used up before the PCR REACTION properly gets going, and then you've got jack shit. There's also the problem of moving an assay to a different TC from the one it was optimized on. Easy right? Wrong. In about 90% of the cases I've seen the assay performance changes (sometimes dramatically if its an especially fussy assay) if you simply move the same cycling protocol to a different machine. It then becomes a matter of customizing the cyc protocl for each machine for the same assay. I've even seen this problem in different machines of the same brand and model.

      You see, the problem is one of physics. TC makers test the heating block of a machine. My boss realized that made no sense. We tested the temperature of the liquid inside of a PCR tube. The Poly tubes and plates used in PCR soften when heated and change shape, which of course changes its thermal characteristics. This may not seem like much, but when you want to hold a temp for 15-30 seconds and variations of a second or more means different results, it means the world. Then there's heating block itself which warps over time. The angle of the tube wells change, The peltier device acts differently over time, hotspots, coldspots, variations due to to the environment. Undershoots, overshotts, in some of the old coolant based TCs you'd even get a buildup inside of the channels of the heating block that would slow the cooling speed.

      When you get down to it, its impossible to build something that will act the same way all the time. The only real solution, and what we tell our reseachers, is to build a robust assay. Something that will work in all but the most extreme cases. Unfortunately there are times when this contradicts the point of the entire experiement.

      Then you're pretty much screwed.

      --

      My days of not taking you seriously are certainly coming to a middle...

    46. Re:I am all for this by sTalking_Goat · · Score: 1

      ROFL! If I buy a Tc off of eBay my support departement would have a coniption.

      --

      My days of not taking you seriously are certainly coming to a middle...

    47. Re:I am all for this by sTalking_Goat · · Score: 1
      I don't see the MultiGene on my list, must not have been around yet.

      For $1800 I'm sure it'd work for off the shelf assays.

      You could literally do a commercial box HIV assay by moving the tubes between two cups of water. I've seen it done. The results aren't pretty but mostly it works.

      But for the "scratch-built" super-optimized assays we do, I wouldn't hold out much hope.

      --

      My days of not taking you seriously are certainly coming to a middle...

    48. Re:I am all for this by Anonymous Coward · · Score: 0

      What makes you think an amateur will be the one to develop that hypothetical virus in the first place?

      We have more to fear from established research scientists and governments than amateurs. All this reeks of is the "you're a loner and hence need to be locked up because we're not sure what you'll do" attitude.

    49. Re:I am all for this by Anonymous Coward · · Score: 0

      Huh? Is it really that bad and is there a business for this? I've built from near scratch (put together various components) using just some close loop stuff for rapid cycle injection molding. Get the mold to temperature, get the resin to temperature, boom slam the screw into place to inject, watch and cool down with radiators, graph, yank mold, next. Decent machines are in the tens of thousands. You can build really nice ones for $2,000 if you don't count your time.

      I worked with PCR machines at college and the NIH campus. I don't see the issue or difference. What am I missing?

      Seems a peltier or a ceramic bands, heck even basic cartridge heaters, even staged baths using two servo arms and a cheap $2 I2C temperature node per stage solves all this. Even two hot/cold on tap with a flow mixer. The 4 degree C variation is a no brainer, but the speed for the temp change will matter.

      I've built home-brew stuff for surplus equipment for around $200 and that was when I'm splurging. You go servo, you'll add $400 for a 2-axis sytem. You could developed a hot/cold mixer in ahlf the time of your 9 months. Costs don't reflect a general purpose computer though (and those who know PIC programming could do without this, I just suck unbelievably at PIC programming).

      And review papers give a shit what equipment you use, as opposed to proof that the equipment works? That's screwed up peer review. Most cutting edge experimentation tends to require custom equipment, but for temperature cycling that's silly. Just submit graphs off the internal clock and the temperature sensor. It's not RT in an OS sense, but you're talking timestamps here.

    50. Re:I am all for this by Zugok · · Score: 1

      I do it all the time
      what you do does not mean you know how these things are formulated, and other regulatory considerations.

      I Am A Manufacturing Pharmacist. I can tell you, making a pill is not simple. You have the drug, then you have excipients, which includes fillers, binders and lubricant. Fillers give the tablet volume. Binders hold the tablet together and lubricants allow the table to be released from the mould easily. Binders and lubricants act antagonistically. That is too much binding agent will make a tablet stick to the mould, and too much lubricant will make the tablet fall a part.

      Then you have to consider the compression of the tabletting machine. Too much and the and the tablet sticks to the mould. Too much or too little compression means the tablet will diistinegrate in the mould, if not the integrity of the tablet will dinsintegrate prematurely post manufacture or after drug adminsitration.

      Then once you have your formulation and your compression figured out (the pharmaceutics), you then have to make sure the tablet disintegrates and dissolves according to the USP, BP or EP (or what ever pharmacopaeia is relevant), and how this may affect the pharmacokinetics and pharmacodynamics of the drug.

      It is not simple.

      --
      "I just can't sit while people are saying nonsense in a meeting without saying it's nonsense" J Watson, Sci Am 288:(4)51
    51. Re:I am all for this by yndrd1984 · · Score: 1

      Scientific American used to run a great column (sadly, no more) called "The Amateur Scientist". They covered projects to preform PCR, electrophoresis and gene splicing - at home and on a small budget. I'm sure thermocyclers have advantages, and may be necessary for other experiments/procedures, but if a stove, pots of water and a few candy thermometers can replace it, then lacking a 'cycler dosn't keep you out of biotech.

    52. Re:I am all for this by shellbeach · · Score: 1

      An older model used Thermocycler will cost at least 10K, and thats on the low end of the instrumentataion scale.

      Crap. All you need are three water-baths and a very patient person prepared to do the cycling by hand ... :)

  3. Very good idea. by ObsessiveMathsFreak · · Score: 5, Insightful

    Open sourcing discoveries in bio-tech would lead to reduced research costs, reduced development times and ultimatly reduced prices of drugs.

    It will also by extendtion lead to more competition in the bio-tech industry, which can only be a good thing. And it will lead to more consumer scrutiny of what were popping into our bodies.

    This is a good idea all round. Except of course for the biotech monopolies who...
    [censor type="DMCA" excuse="Subversive,complaint"]

    [/censor] ..GNU for biotech

    --
    May the Maths Be with you!
    1. Re:Very good idea. by thebes · · Score: 0

      I don't think we will see a reduced price of drugs because there is still money to be had, and a good portion of these critical new drugs are just that...critical. People will pay whatever the drug companies charge for them. Call me cynical, but isn't that how so many things in fact ARE these days? I agree that "opensource" science is a cool idea and a good one. But I don't really see end user cost lowering appreciably.

    2. Re:Very good idea. by glueball · · Score: 1

      You are leaving out something: The 7 years it takes to learn how to make the drug. Do you think it magically happens? It takes $1,000,000 a day to develop a drug once it reached the "potential" milestone. I know because I have participated in the process. That is for *one* drug research, *one* scale-up (pilot plant work), one FDA clinical trial in the US, ...

      What do you think--because it's open source that a million drug candidates can be tested in a pilot plant that there will be economy of scale?

      Drug discovery is hard, labor-intensive, resource intensive work. People are trying to generate a computer model for drug discovery, but frankly, it is still much less expensive, much faster, and much more correct to do the research in the lab, then on rats, and then on humans.

    3. Re:Very good idea. by Anonymous Coward · · Score: 0

      Do you even know what monopoly means? At this moment, there is NOT a single, all powerful, biotech entity that determines which diseases will be studied and which drugs will be made (except for maybe the U.S. government...hmmmmm).

    4. Re:Very good idea. by skifreak87 · · Score: 1

      More competition is only good if the new "drugs" can actually compete in quality w/ the old ones. Worst case scenario is that this makes the "old" method of patent-drugs obsolete and now those companies stop researching new products. Maybe that will be fine, maybe it wont be profitable enough for these corps to only manufacture generic drugs unless they become more expensive and thus prices will go up. I'm all for the sharing of information and for taking life-or-death decisions AWAY FROM for-profit corporations, but let's not only focus on the possible good benefits and be our usual paranoid selves and look at both sides. Hopefully someone more informed than me can add a nice run-down of possible scenarios (both good and bad)

      Out of order? Fuck! Even in the future nothing works! -- Spaceballs

    5. Re:Very good idea. by amabbi · · Score: 1
      Open sourcing discoveries in bio-tech would lead to reduced research costs, reduced development times and ultimatly reduced prices of drugs.

      No, it wouldn't. The high cost of drugs (and the inflated cost of drugs in the US) is due to a number of factors. Did you notice that very few of the quotes in the economist article were from actual researchers in the biotech field? Rather, most of the people they quoted were from management and public policy professors, without a firm grasp of what it takes to develop new biotechnologies.

      According to a Tufts University study (funded by the pharmaceutical lobbying group), it costs $800m nowadays to make a new drug come to market; and a fraction of these actually recoup this investment; and a fraction of these make good money for the drug companies. Where does the largest portion of this cost go? Into clinical trials, the multi-phase, multi-year, multi-million dollar experiments required to get FDA approval. First you need to find out if your drug candidate will harm or kill human subjects; then you find out how effective it is to treat an injury or disease; and then you find out what dose you can safely give, and what dose you need to be effective. How does "open sourcing" of biotechnology solve these problems?

      The Economist article, in my opinion (FYI I'm a pharmaceutical researcher planning on going to med school), is poorly written, poorly conceived, and poorly researched. They mention, briefly, what are known as "use patents," whereby an existing drug can be patented for a different therapeutic use. They mentioned that "it might" be possible for a company or research group to patent a drug for a new use, but no one would do so, which is just flat out false. Multiple companies hold use patents for the same drug; the Economist fails to explain how open source would increase new therapeutic avenues for existing drugs, when the company will have to go through the same laborious and cost-intensive procedure of clinical trials.

    6. Re:Very good idea. by ObsessiveMathsFreak · · Score: 2, Interesting

      Hmmm. This comment seems to be getting a lot of flack. I still stand by my arguments though.

      Less barriers in biotech development would lead to faster production and more competition. Just think what the computer has done for the industry.

      I did find this article as I was browsin' around. it describes the argument for and against Alexander fleming's decision not to patent penicillin. Enjoy.

      --
      May the Maths Be with you!
  4. Open-source medicine? by Apocalypse111 · · Score: 4, Funny

    So, when some of the strange, undocumented side effects of this open-source medication turns you blue, do you think the average Ethiopian will have net-access to go crawling through some message boards looking for a fix? Just kiddin' yo, but I couldn't resist.

    --
    There is no mod option "-1: Disagree" for a reason. "Overrated" is not an acceptable substitute. Post something instead.
    1. Re:Open-source medicine? by wes33 · · Score: 3, Interesting

      the post is funny but the point is actually very interesting. Drug companies face huge legal risks from side-effects of medication (think thalidomide). How would open source medicine pay for these risks (somebody has to pay, even if it the patients who pay with their health)? The obvious answer is via a public health care system (like Canada's say) but there would likely have to be limits on the compensation allowable. But the basic idea of zero patent medicine research is excellent!

    2. Re:Open-source medicine? by Apocalypse111 · · Score: 1

      How would open source medicine pay for these risks...

      Answer: well, if you'd read the disclaimer, you'd see that by opening the pill bottle, you agreed not to hold myself or the manufacturer responsible for any strange side-effects, including but not limited to...

      --
      There is no mod option "-1: Disagree" for a reason. "Overrated" is not an acceptable substitute. Post something instead.
    3. Re:Open-source medicine? by smcavoy · · Score: 1

      but all that is moot if you can prove negligence.
      i.e. if the a drug company pushes the drug for another off label use, and it causes serious health problems, they'd be liable....

    4. Re:Open-source medicine? by Anonymous Coward · · Score: 0
      when some of the strange, undocumented side effects of this open-source medication turns you blue

      If you go blue, scream, and die, don't blame open source. We all know who to blame for the blue scream of death...

    5. Re:Open-source medicine? by Man+of+E · · Score: 1

      So what, if he doesn't want to turn blue, he should stop complaining and submit a patch.

      --
      Ceci n'est pas une sig
    6. Re:Open-source medicine? by Apocalypse111 · · Score: 1

      If you go blue, scream, and die, don't blame open source. We all know who to blame for the blue scream of death...

      If this mentality, and the platform rivalry that follows, is taken to its final stupidity in the open source medicine field, then sooner or later we'll be having arguements about really created the liquid inside the new Viagrix gel-caps (courtesy of a study either by the Alexis de Tocqueville Institution or the American Journal of Medicine, I can't decide which)

      --
      There is no mod option "-1: Disagree" for a reason. "Overrated" is not an acceptable substitute. Post something instead.
    7. Re:Open-source medicine? by ThereIsNoSporkNeo · · Score: 1

      Patient on messageboard: Someone help! I'm turning blue and I'm having trouble breathing! What should I do?!

      BioTech Guru: RTFM!

      --
      With my dying breath, I curse Zoidberg!
  5. Good idea but... by alex_ware · · Score: 2, Interesting

    the way drugs are developed in a patent based profit world by big companies will mean that big companies will be slow on the uptake as they want to control their market share 100%

    --
    If you have nothing useful to say post as AC.
    1. Re:Good idea but... by robslimo · · Score: 3, Interesting

      I second this. They'll want to hang to what they consider proprietary knowledge. Folks will (have already) argue that in science (especially genomics) all related knowledge belong to all of us because it is part of us. That argument makes sense to me, but as long as a company acquires such information without sharing it, it is still "proprietary" in a certain sense.

      In bio-business there is a big dis-incentive to sharing information as they are out for the greater good of their stockholders first, humankind second. In acedemia, you would think there would be much incentive for sharing, but that is not always true. It depends greatly on the funding model of the institution or project. Many university studies are funded by industry with the understanding that any resultant patents would be assigned to the people holding the purses to commercialize as they wish. Other projects remain even more proprietary in the sense that nothing is patented but kept as a internal IP.

  6. Weber - Success of Open Source by JoshuaDFranklin · · Score: 3, Informative

    This is an argument that Steven Weber makes in The Success of Open Source, which I reviewed recently. For more info, check out the list of reviews I've put together. While it's possible that the Economist thought of the idea on its own, I'm disappointed they didn't at least mention his previous work.

    1. Re:Weber - Success of Open Source by Anonymous Coward · · Score: 0

      Steven Weber wrote the article, the Economist does not use bylines. They think no bylines makes them old-school.

  7. Check out bioinformatics.org... by tcopeland · · Score: 4, Informative

    ....i.e., right here. Looks sort of GForge-ish, although with frames and a custom theme and such-like...

  8. Open Source Medicine?? by Anonymous Coward · · Score: 0

    hey! hey! My privates are proprietary

  9. also neuroinformatics by drfireman · · Score: 4, Informative

    The Human Brain project funds neuroinformatics projects, many of which are released under free or open source licenses.

  10. Re:Hmmm by MarkPNeyer · · Score: 0, Offtopic

    Communism is more like "You share your things with me and the other fellows in power, or else you're on your way to the goulags."

    --

    My blog
  11. We need a biotechnology 'GPL' by DFJA · · Score: 2, Insightful

    I've been saying this for ages - we need a bitoechnology GPL. In other words, you are free to use the technology and incorporate it into your own research/product developments etc., but if you distribute a product that uses this, your process must be made available under the same licencing conditions. So if I invent a process that's useful in producing a wonder drug, anyone can use it, but all other aspect of this wonder drug must be available for others to improve upon.

    --
    43 - For those who require slightly more than the answer to life, the universe and everything.
    1. Re:We need a biotechnology 'GPL' by Jim+McCoy · · Score: 1

      Guess what will happen. No one will use your process. They will do whatever is necessary to avoid anything which ties their hands in this way. Not because they are greedy, but because the part that you did, coming up with a good idea, is cheap and easy. Good ideas are a dime a dozen. The cost comes in when it becomes necessary to turn the idea into a useful product through years of additional research and clinical trials.

  12. Who will pay? by Anonymous Coward · · Score: 5, Insightful

    Open-source software? No problem. Unencumbered research? No problem, and I assume non-profit organizations or government sources are paying. However, as I like my drugs tested before taking them, who other than these non-profits will pay the cost to test the proto-drugs?

    No patent protection = no profits. No profit = no investment, and no desire to fund tests.

    1. Re:Who will pay? by maxwell+demon · · Score: 2, Interesting

      It would be a good idea if the source of test funding were not the company making the drug. Because that way the tests would be really independent and at least less likely to be influenced by the company which wants to sell the drug.

      Maybe the health insurance would be the right place for funding tests. First, they currently do anyway, just indirectly (through paying for the drugs). Second, they have both a desire to have good drugs on the market (because better drugs means better health means less cost), and not to have bad drugs on the market (because bad drugs means no effect and/or bad side effects, which means extra cost for medication).

      --
      The Tao of math: The numbers you can count are not the real numbers.
    2. Re:Who will pay? by Paulrothrock · · Score: 1
      You Fool! Companies will grow that provide services and bundle the drugs! They will pay for research!

      But seriously, the profit motivation is there: They still have to make the drugs and sell them. I don't think it would lower the cost per se, but scientists or grad students could work on rare diseases in their spare time to find cures, which could then be manufactured.

      Openness is excellent. The more people who know about cancer treatments, the closer we will come to a cure.

      --
      I'm in the hole of the broadband donut.
    3. Re:Who will pay? by shotfeel · · Score: 1

      And I will take that one step farther. Who will pay to develop the drug?

      Non profit/publicly funded entities have the same problem for profit companies do, limited funding. So let's take the case of tax-payer funded research. Do you spend millions to try to develop a safe, effective drug to cure a rare disease, or would that money be better spent on basic preventive health care or going after a more prevalent disease? For any type of research entity the question has to be asked about where you're going to get the most return for your research dollar. Considering we're talking life and quality of life its a very difficult issue.

    4. Re:Who will pay? by pjay_dml · · Score: 1

      patent protection==limited profits -> limited profits==no investment
      the desire to fund testing only exists, because THE LAW SAYS SO! you make it sound, as if the industry does testing, just to make more profit.

      ideas+patents!=innovation
      ideas+freedom==innovation

  13. Open Source? by stinkyfingers · · Score: 2, Funny

    Does that mean in ten years, we will bemoan the fact the Pfizer owns a prohibitive majority of the market share, and that argue that the free stuff put together in some Danish guy's basement is as good as the stuff they charge for?

    1. Re:Open Source? by Anonymous Coward · · Score: 0

      If you want to make stuff like generic penicillin and aspirin, you can do it with ~household stuff. If you have $50000 to spend on good equipment and, of course, some competence, you can do it safely too. The 'recipes' are out there, use google. Same thing is true for a lot of other generics, though they might be more expensive to produce.

  14. Wikipedia is another example... by dpbsmith · · Score: 2, Insightful

    Wikipedia is another example of open-source-like methods being applied to a non-software area. Only time will tell exactly how successful it is, of course.

  15. Didn't Wired magazine mention this? by MtViewGuy · · Score: 1

    I remember reading a very recent Wired magazine article where advances in technology has made it possible to create in the open domain what we should call genetically improved crops, essentially genetic cross-breeding without creating a whole new genome from scratch for the crop at vastly faster rates than normal.

    The article mentioned how rice crops in India thanks to computerized genetic analysis for cross-breeding resulted in a rice crop that had 20-30% higher yields and vastly improved resistance to insect, parasite and fungal pests.

  16. It should be used for all patents by argoff · · Score: 5, Insightful

    The simple truth is that patents really are a lie about free market economics. They treat it like it's a physical property, but it's not. If millions of people use my car it deprives me use of it in a serious way, but if millions of people use the same invention - then just the opposite happens. The inventor is not only able to keep and use his original invention however he wants, but also now has huge forces contributing to it's improvement.

    If the government gave someone a monopoly on making cars, because they didn't have an incentive to make cars when other people can make them too - most of us would see that as crap. Market share isn't an inherent property right. If the government gave someone a monopoly on growing oranges, on the premise that they wouldn't have an incentive to grow oranges if other people could too - most people would see that as crap too. But for some reason, that logic breaks down when it comes to invention.

    Finally, looking back on history to paraphrase "look at the great wealth and prosperity of the plantation system, the grand architecture, the vast and rich land, the free markets ... they paid for those slaves God blessed, surely that alone shows slavery is good, and the negros have been saved from their barbaric condition" ....

    I wish I could say that patents are causing less harm, but when they recently lokcked out 10's of millions of Africans dying of AIDS from getting generics because "they had no incentive", because patents are "a property right", becasue "the wealth of the pharmasutical industry in the US is proof that patents work" ... etc. - it really causes one to think.

    1. Re:It should be used for all patents by Mikkeles · · Score: 1
      'The simple truth is that patents really are a lie about free market economics. They treat it like it's a physical property, but it's not. If millions of people use my car it deprives me use of it in a serious way, but if millions of people use the same invention - then just the opposite happens. The inventor is not only able to keep and use his original invention however he wants, but also now has huge forces contributing to it's improvement.' [emphasize mine]

      While there is much wrong with the patent system (to say nothing of IP in general), not all inventors are looking for improvements to their inventions, but rather would like to feed, clothe, etc. their families and enjoy a reasonably comfortable lifstyle.

      --
      Great minds think alike; fools seldom differ.
    2. Re:It should be used for all patents by Derkec · · Score: 4, Insightful

      Patents are good.

      Let's assume we do away with them though. Now let's compare two business models. In one, I spend hundreds of millions developing new drugs. Once I pass the very expensive FDA process, I sell my drugs at market rates. In the other, I sit on my ass and wait for someone else to develop drugs. Then I spend a million bucks reproducing the other guy's results and sell the same drugs at market rates.

      Which one would you choose? I wouldn't waste my / my shareholders money on R&D, I'd wait. Everyone would. R&D would almost only happen in the public sector and in academia. We'd either see a drastic reduction in new drugs coming to market or the government would need to pay through the nose to do the research.

      True, you don't deprive me of the ability to make the drug I developed when you infringe no my patent. However, you get hundreds of millions of in research for free and by competing with me, make my return on that research far less than it otherwise would be.

      Throwing some quote in about slavery doesn't help your case any more. It's like if I saw eating candy is great and you equate that to saying slavery is great. Therefore eating candy is bad. You need to develop that argument some more so us dumb people can follow you.

      Further drug monopolies should only last 20 years. Some companies use tricks to extend that, and I despise that behavior. But in a properly functioning system, drug patents work just like car patents do. The airplane (and I believe the auto) were patented. That gave monopoly / royalty rights to the patent holders for 20 years. The system wasn't broken. The inventor profited nicely and with time competition could come in. Just as it comes in with generic drugs down the line.

      Now when there are life saving drugs in question with no alternative treatment, this takes on a bit of a morbid twist. Perhaps, the taxpayers of the industrialized countries would like to buy the patents on these drugs to make them widely available and still reward the company for doing the work to invent the drug. Keep in mind that if nobody spends the time, energy and cash to develop a drug, those people are going to die anyway.

      Now, in the case of catastophe like AIDS, it seems reasonable for American firms to provide low cost drugs to those who can't afford them - purely because that's a nice thing to do. There's been some progress along these lines, but it has been painfully slow. Equally painful has been conservative objections to the low cost item that could even prevent Aids - the condom.

      Unless you want to present a viable alternative where drugs will be developed and put through FDA trials by somebody else, patents still seem to be the way to go.

    3. Re:It should be used for all patents by argoff · · Score: 1

      While there is much wrong with the patent system (to say nothing of IP in general), not all inventors are looking for improvements to their inventions, but rather would like to feed, clothe, etc. their families and enjoy a reasonably comfortable lifstyle.

      This is a fallacy. First off both the PC boom of the 80's, the internet boom of the 90's, and now the linux boom of 2000's have been fueled on no uncertain terms by rampant copying. Second, the nature of patents almost guarantees that they almost never help the small inventor, but rather get caught up in large multinational corporations or legal firms who extract license fees - long behold, that's exactly what's happened and now all of a sudden people act supprised offended?

    4. Re:It should be used for all patents by kmac06 · · Score: 1
      Patents for medicine/drugs is ESSENTIAL, and you are naive and foolish if you think otherwise. Almost all drugs developed are developed by companies with one goal: make money. If you remove patents, the company that poured all the money into R&D gets no advantage over a company that can steal their results. If you remove patents, you remove incentive to develop drugs, and drug development will come to a screeching halt.

      You say that patents should be removed so that Africans dying of AIDS can get drugs cheaply/free. I say that without patents, the drugs wouldn't exist at all. Like it not, patents for medicine are crucial, and here to stay.

    5. Re:It should be used for all patents by kmac06 · · Score: 1

      One more thing I want to say--I am certainly not opposed to medicine developed without patents. If a group wants to get together and develop beneficial drugs which they will share with everyone, that's great! Unfortunately, I don't see this sort of contribution being significant any time soon. Real research is too expensive, and the private sector will dominatie it for a long time to come.

    6. Re:It should be used for all patents by jwcorder · · Score: 1
      You look at patents as if they are the government issuing you the right to own the world. This is not how the idea worked in the beginning. The patent process is in place to do this...Let's say you wake up tomorrow morning, fall in the shower and have a revelation. You see a design in your head, and you fashion it with duct tape, a condom, and your wifes food processor that allows you to run your car off of rotting vegetables. Then on the way to work, you stop by the patent office and file a patent. Then come on in to work and tell me about it while we wait in line for coffee at the canteen.

      Me, being the sneaky bastard I am, decide to

      1. Steal your work
      2. Screw your wife
      3. Profit!!.

      Thankfully, because you patented your idea...you can sue the crap outta me and get yourself a new hot wife.

      Now I conede that allowing someone to patent air, or electronic auctions, or a thought or intangible property is incorrect. But that doesn't mean we should disband the patent office.

      --
      http://jayceecorder.blogspot.com
    7. Re:It should be used for all patents by Mikkeles · · Score: 1
      'Second, the nature of patents almost guarantees that they almost never help the small inventor, but rather get caught up in large multinational corporations or legal firms who extract license fees...'

      I agree that that is one of the very significant problems with the patent system; the inventor does not benefit as often as one would wish. That does not invalidate my remark:

      ...not all inventors are looking for improvements to their inventions, but rather would like to feed, clothe, etc. their families and enjoy a reasonably comfortable lifstyle.

      Regardless of means, I believe that innovation (if useful) should provide some material reward. The means and amounts, however, is the tricky part, requiring a balance of public vs. private rights.
      --
      Great minds think alike; fools seldom differ.
    8. Re:It should be used for all patents by rushmobius · · Score: 1

      Maybe centuries from now all individuals will work to the betterment of society.....

      Until then, most are driven by a sense of selfish wants and desires. This means simply that if one puts time/effort into discovery/research/labor, one expects to be compensated.

      If I spend 10 years developing a new communication medium, I would expect to control the market of that medium for a time period that justifies my 10 years of investment. If anyone could jump in the market as soon as I my communication medium was released, they would be the added benefactors of my time/effort, lessening the value of my 10 years.

      Is that greed? Only if I charge an unfair market price for my discovery.

    9. Re:It should be used for all patents by argoff · · Score: 2, Interesting

      Let's assume we do away with them though. Now let's compare two business models. In one, I spend hundreds of millions developing new drugs. Once I pass the very expensive FDA process, I sell my drugs at market rates. In the other, I sit on my ass and wait for someone else to develop drugs. Then I spend a million bucks reproducing the other guy's results and sell the same drugs at market rates.

      Lets assume I spend 100's of millions developing a new car? get it? also, what you say doesn't reflect reality - most big patent money is spent on marketing not R&D.

      second, the slavery analogy makes a good point. The property rights argument to justify patents is a bullshit argument. The incentive argument to justify patents is also a bullshit argument. The great wealth of the industry argument is also a bullshit argument. What else is there, other than I want to sit on my ass and collect royalties?

      Keep in mind that if nobody spends the time, energy and cash to develop a drug, those people are going to die anyway.

      Keep in mind that 1000's of researchers are forced to hold back sharing R&D and collaberating with other researchers for fear that one of them will get one up on them, get a patent, and lock everyone else out. Patnets cause this situation, and now you hawk patents as the solution - well no thanks.

      Unless you want to present a viable alternative where drugs will be developed and put through FDA trials by somebody else, patents still seem to be the way to go.

      And theres you're problem right there. You prove there isn't viable alternatives. You're the one who wants to coerce massive restrictions on what people can copy and immitate. You're the one who wishes to restrict everyone else. Any intellectual honesty would dictate a real justification for such impositions - not just bullshit talk about FDA approval, incentive and R&D that doesn't really match up with the real world.

    10. Re:It should be used for all patents by argoff · · Score: 1


      Name one major cure that was made from patent R&D money? 90% of the ones I can think of were made by accident, or by independent researchers - then companies came in after the fact, grabbed the patents and spent the money on marketing.

      You are also making the mistake of assuming that there is no downside to patents interms of medical discovery. that's not true. Patents have a drastic effect on how researchers share and collaberate.

    11. Re:It should be used for all patents by Cereal+Box · · Score: 1

      Lets assume I spend 100's of millions developing a new car? get it? also, what you say doesn't reflect reality - most big patent money is spent on marketing not R&D.

      You couldn't be more wrong:

      On average, it now takes $802 million, including the cost of capital, to come up with a new pharmaceutical product.

      The study found that the average development time for new medicines is 12 years.

      In the 1990s, drug firms spent an average of $121 million out-of-pocket in research prior to clinical trials -- but that figure rises to $336 million when the costs of capital are included. The clinical testing stage consumes $282 million -- or $466 million when capital costs are factored in.

      OK, we get it: you don't like patents. But please, don't let your silly ideology blind you to the fact that the original poster was talking about: it costs lots of money to develop new drugs, and without patents to AT LEAST ensure that the developer can recoup his hundreds of millions of dollars, there will be NO incentive to develop new drugs. After all, why should he when someone else can just copy the work of someone who did all the R&D and offer the drug at a low price right away?

    12. Re:It should be used for all patents by argoff · · Score: 1


      1. Steal your work
      2. Screw your wife
      3. Profit!!.
      .....

      You forgot one. Go to the patnet office, tell a few lies, and lock me out from using my own invention forever. At least with the former, we can compete on equal terms - and I will probably win out because I have a deeper understanding of the original idea - now I'm screwed.

    13. Re:It should be used for all patents by that_xmas · · Score: 1

      I call BS on this.

      Africans are dying of AIDS because there is no infrastructure to distribute the drugs that are available.

      For Africans, the costs of patented drugs is actually cheaper than the generics made in India and Brazil. And the Fixed Dose combinations offered by the same generic companies wind up being more expensive than the individual drugs made by the patent holders.

      Here is an analysis using MSF (Doctors without Borders) own data.

    14. Re:It should be used for all patents by argoff · · Score: 1

      I renember hearing similar arguemnts as to why freedom doesn't work, and the USSR with the power to coerce peoples sharing the wealth would. It's wasn't true there and I dont think it is true here.

    15. Re:It should be used for all patents by argoff · · Score: 1

      Well then how come the pharmacutical companies sued a bunch of African nations for attempting to make their own generics in the world court?

    16. Re:It should be used for all patents by argoff · · Score: 1

      From what I understand, the industry statistic is that companies spend almost twice as much on marketing as R&D. I'll half to look it up.

      Yeah I don't like patnets. I used to love them, but the more I learnt about them the more I've come to dispise them. They are not free market, they are not property, they are not an incentive, they lock out small inventors, they fragment research and industry innovation, they encourage frivolous lawsuits and bogus claims by their very nature.

    17. Re:It should be used for all patents by that_xmas · · Score: 1

      Because they still hold the patents and the African countries signed treaties that say they have to honor the patents.

      If the countries are so concerned about their citizens, perhaps they could remove the importation and VAT taxes from these drugs.

    18. Re:It should be used for all patents by argoff · · Score: 1

      Innovation is it's own reward. I think it's intellectualy dishonest to assume that without massive monopolies everywhere researchers would just starve in the streets. It hasn't happened that way in the open source software community at all.

    19. Re:It should be used for all patents by Mikkeles · · Score: 1
      'Unless you want to present a viable alternative where drugs will be developed and put through FDA trials by somebody else, patents still seem to be the way to go.'

      Here's the outline of one:

      Allow any drug manufacturer to repeat the FDA trials and thus be allowed to sell the drug or the original manufacturer can licence the drug and manufacturing process, thereby avoiding the (new) trials. The originating company would then be pricing the licences at a cost competitive with the cost of the trials plus R&D into the manufacturing method plus time to market.

      --
      Great minds think alike; fools seldom differ.
    20. Re:It should be used for all patents by Cereal+Box · · Score: 1

      ~$1.6 billion on advertising? On top of $800 million? Christ, it's hard enough to generate $800 million in sales, let alone $2.4 billion. Remember, once the patent runs out (which is not long after the drug is released, since the patent must be applied for the instant the compound is discovered, before the years and years of trials), anyone can develop the drug and undercut the company who created the drug in the first place.

      I'll half to look it up.

      Yes, please do. Hopefully you didn't find your statistic on some left-wing, "big business is evil" website.

      At any rate, you have failed to address the issue of cost. Considering that it WILL cost hundreds of millions of dollars to develop a drug and, without patents, it is inevitable that there will be numerous companies simply copying your research for next to nothing, how will anyone be motivated to do research in the first place?

    21. Re:It should be used for all patents by Mikkeles · · Score: 1
      'Innovation is it's own reward.'

      No, it's not. At least for some people; for others it is.

      'I think it's intellectualy dishonest to assume that without massive monopolies everywhere researchers would just starve in the streets.'

      I agree; thankfully I wrote nothing of the kind.

      --
      Great minds think alike; fools seldom differ.
    22. Re:It should be used for all patents by Anonymous Coward · · Score: 0

      What a load of crap - the Indian generics are most definitely cheaper than the patented drugs. I don't where you get your sources sir.

    23. Re:It should be used for all patents by Derkec · · Score: 1

      Ok, interesting. Would you elaborate on how that drives down prices while still providing incentive for the R&D to develop the drug?

    24. Re:It should be used for all patents by MadBiologist · · Score: 1

      Cost of equipment has to be factored in... when a box of reagents cost $1000 for one experiment, and you have to do 100+ experiments to prove your thesis, then there has to be funding provided... we can either count on the government to provide it, or on indusrty. There doesn't have to be a monopoly per say, but some return on the investment is imparitive. In software, there isn't the quite so large hurdle to join in. Education may be similar, but equipment costs are much different.

      J

      --
      'Quantum materiae materietur marmota monax si marmota monax materiam possit materiari?'
    25. Re:It should be used for all patents by Anonymous Coward · · Score: 0

      Thats a great theory. We all know that inventors invent solely so that they can use the invention and with the hope that someday it will be improved upon.

      Money has nothing to do with it.

      Money always wins. Money versus anything. Taking this basic concept as the truth it is - means that the patent system does work.

      Comparing patents to plantations is not even stretching, its inflammatory to no purpose.

      I can't beleive this guy was modded to a 5.

    26. Re:It should be used for all patents by seafortn · · Score: 1

      Just to pile on what everyone else has said - don't you think there should be a monetary reward of some sort for inventing? This brings to mind a guy who recently had the idea to mix silicone with antimicrobial agents in an effort to cure his wife's dermatitis - he ended up with a hand sanitizing rub that will kill bacteria for hours after application, even after hand washing.
      Now he's filed for a patent, will license the product to a large company which will produce it and sell it to hospitals everywhere, and possibly save the lives of patients who otherwise would have picked up a MDR (multi drug resistant) bug from the hands of their nurse / doctor / janitor instead. So the product is now widely available, approved for use, and the inventor gets a (deserved) reward for his hard work.
      The alternatives, in your patent-less world, are two:
      1. The guy releases his formula, it's picked up by generic drug manufacturers everywhere, and he never sees a dime from his invention. 2. The guy is worried that his idea will be copied, keeps the formula a secret, and sells it to a cosmetics company, which then sells it in perpituity, never revealing the secret formula, maintaining a monopoly on this dermatitis-curing cream, and screwing over those same patients who were helped by the patent process, because it can't get approved as a medical product without revealing the formula.
      So it seems that you want to either screw the inventor, or screw the rest of the world - which one is it?

    27. Re:It should be used for all patents by TheSync · · Score: 1

      My wife is alive because of a patented medicine, so blow off!

    28. Re:It should be used for all patents by TheSync · · Score: 1

      This is true - a lot of money is spent on pharma marketing.

      This way patients and doctros know what medicines are. You know what vioxx is, but do you know what domperidone is?

      Because domperidone did not make it through FDA efficacy trials (a long bureaucratic story), it can't be legally marketed in the US, despite widespread use around the world. It took me a year to find it for someone close to me, and I run into people with the disease it greatly helps all the time who don't know about it.

      Marketing of pharma is good. Not 100% good, but I rather be over-informed than under-informed when it comes to my health.

    29. Re:It should be used for all patents by PMuse · · Score: 1

      If millions of people use my car it deprives me use of it in a serious way, but if millions of people use the same invention - then just the opposite happens. The inventor is not only able to keep and use his original invention however he wants, but also now has huge forces contributing to it's improvement.

      The analogy is flawed. Your cost to obtain your car was the marginal cost to purcase 1 copy of the car from a manufacturer producing them by the thousands. The cost to invent that car was far higher; higher even than the cost for a duplicator to produce the first duplicate of that car. Those who favor patents seek to reward the fellow who paid the cost to invent.

      If the government gave someone a monopoly on growing oranges, on the premise that they wouldn't have an incentive to grow oranges if other people could too - most people would see that as crap too.

      Patents are not meant as a production incentive. They're an incentive for the design/research that must take place beforehand. If you think research/invention doesn't require money, explain to your professors that they really don't need their research grants. Explain to every corporation in the country that they can fire all their R&D depts -- because inventing doesn't require money.

      Sure, bad patents are bad and perpetual copyrights are silly, but the economic theory is sound: research/invention/creation/authorship are expensive. Production revenues are insufficient where duplicators earn the exact same revenues without the investment. What we should be talking about is how to make the research incentive match the research investment.

      --
      "We reject as false the choice between our safety and our ideals." --The American President (20.1.2009)
    30. Re:It should be used for all patents by Anonymous Coward · · Score: 0

      Once I pass the very expensive FDA process

      Have you considered the possibility that the patent system is a primary reason that the "FDA process" is so very expensive in the first place?

      Just like the telco's LIKE the huge maze of tarrifs because it serves as a barrier to entry for the market that keeps out 99.9% of competitors, so does the FDA keep anyone but the largest and most well-funded companies out of the market for medicine.

    31. Re:It should be used for all patents by Anonymous Coward · · Score: 0

      Money always wins. Money versus anything. Taking this basic concept as the truth it is

      That reflects far more on you than on the world.

    32. Re:It should be used for all patents by that_xmas · · Score: 1

      Look at the link I posted. That's an analysis of Medecin Sans Frontieres' (aka Doctors Without Borders') own data.

    33. Re:It should be used for all patents by Derkec · · Score: 1

      Do you suggest that the FDA process is a government conspiracy to keep large pharamacuticals richer than smaller players and any public safety benifits are an afterthought?

      No, I hadn't considered that possibility. I thought setting up large scale human trials and paying insurance on that crap was expensive. I'm no expert though.

    34. Re:It should be used for all patents by argoff · · Score: 1

      The analogy isn't perfect, but it still sound because even the production of a car plant (RND patents or not) costs a ton of money.

      Patents are not meant as a production incentive. They're an incentive for the design/research that must take place beforehand. If you think research/invention doesn't require money, explain to your professors that they really don't need their research grants. Explain to every corporation in the country that they can fire all their R&D depts -- because inventing doesn't require money.

      Some of the above is circular logic, for example, one of the primary reasons why universities require so much RnD is becuase the patent system makes it impossible for public usable RnD to happen anyplace else.

      Also, it doesn't reflect true to what actually happens in the marketplace. When AMD could copy intel's design, Intel responded by making faster chips, not by shutting down it's RnD department. When ethernet could be coppied and implemented more freely than token-ring, ethernet became where all the new RnD happened. If I have a factory and I can make it 20% more efficient using a few innovations, then there is pressure to do that wether competitors will copy it or not. With Linux, a whole lot of RnD happens at OSDL, and it is funded by large corporations. Plenty of RnD happens, but none get a patent monopoly in return.

      Plus, noone ever considers the downside to patents in terms of RnD. With patents there is great pressure for researchers from different companies not to share and collaberate publicly - for fear a competitor will get one up on them, get a key patent, and lock them out. That hurts RnD.

      Alot of innovation is expensive, but orders of magnitude more is incremental. Innovations making small locigal steps on previous innovations in a contunious progression. The patnet system does not help this, but rather hinders and gets in the way.

    35. Re:It should be used for all patents by PMuse · · Score: 1

      Well put. To clarify one part,

      If you think research/invention doesn't require money, explain to your professors that they really don't need their research grants.

      Some of the above is circular logic, for example, one of the primary reasons why universities require so much RnD is becuase the patent system makes it impossible for public usable RnD to happen anyplace else.

      One of the primary reasons why RnD costs so much at a university or anywhere else is that researchers need money to buy beer just like the rest of us. Cheers!

      --
      "We reject as false the choice between our safety and our ideals." --The American President (20.1.2009)
  17. He has a point by aussie_a · · Score: 3, Insightful

    Communism and Open Source do sound similar (in their principles). The parent (was probably a troll) but only because they knew that everyone would see them saying "sounds like something bad to me" instead of "sounds like communism to me." Communism isn't necessarily bad. I was thinking in the shower (before I saw this article) that communism is a set-up where everyone benefits by the greater good of the community. This works by making sure everyone can benefit from the efforts of individuals. Sounds like Open Source doesn't it?

    1. Re:He has a point by argoff · · Score: 2, Insightful

      Communism and Open Source do sound similar (in their principles). The parent (was probably a troll) but only because they knew that everyone would see them saying "sounds like something bad to me" instead of "sounds like communism to me." Communism isn't necessarily bad. I was thinking in the shower (before I saw this article) that communism is a set-up where everyone benefits by the greater good of the community. This works by making sure everyone can benefit from the efforts of individuals. Sounds like Open Source doesn't it?Communism and Open Source do sound similar (in their principles). The parent (was probably a troll) but only because they knew that everyone would see them saying "sounds like something bad to me" instead of "sounds like communism to me." Communism isn't necessarily bad. I was thinking in the shower (before I saw this article) that communism is a set-up where everyone benefits by the greater good of the community. This works by making sure everyone can benefit from the efforts of individuals. Sounds like Open Source doesn't it?

      Marxisim is about controll, open source is about freedom. When the government controlls all information - things like open source don't even matter.

      With Marxisim the declaration is that the government should controll all information

      With copyrights, it's a question only a select group of individuals should controll information

      With say the GPL, the declration is that noone should controll the information.

      Only the last one gives true freedom from controll.

      Also, The simple fact is, that I have the resources to make a given product, and people are willing to pay me, and I want to do this with my life - then no group of "enlightened" individuals, no matter how "enlightened" should have a right to tell me anything otherwise. Nice enlightened violence and coersion is still violence and coercion.

    2. Re:He has a point by Elledan · · Score: 1, Offtopic

      "Communism isn't necessarily bad."

      Communism is the ultimate form of democracy, because it elminates any form of government and hierarchy. In a truly communistic system, everybody is equal, and everybody works towards a common goal.

      Definitely sounds like Open Source.

      --
      Site & blog: http://www.mayaposch.com
    3. Re:He has a point by kmac06 · · Score: 1
      Communism is the ultimate form of democracy, because it elminates any form of government and hierarchy. In a truly communistic system, everybody is equal, and everybody works towards a common goal.

      Uh...no. Maybe you're thinking of socialism. In Communism, EVERYTHING is controlled by the government.

    4. Re:He has a point by Elledan · · Score: 1, Offtopic

      False. With Socialism there still is a government, as it (in Marxism) has the task of distributing all resources.

      Capitalism -> Socialism -> Communism

      With Capitalism individuals (companies) pursue their own goals, with a government standing at the sidelines to keep things from getting out of control.
      With Socialism, the resources produced by the capitalistic system are re-distributed by a strong government. Individuals are still able to pursue their own goals, but have more duties to the rest of society.
      With Communism all individuals work together without requiring any outside influence (i.e. a government). There are no hierarchies (which also rules out the existence of any kind of government). What is good for the individual is good for society.

      --
      Site & blog: http://www.mayaposch.com
    5. Re:He has a point by doj8 · · Score: 1

      > Uh...no. Maybe you're thinking of socialism. In Communism,
      > EVERYTHING is controlled by the government.

      Socialism: an economic system in which the means of production are controlled by the state

      Communism: a political theory derived from Marxism, advocating a society in which all property is publicly owned and each person is paid and works according to his or her needs and abilities

      Of course, you can find different definitions of each of them.

      Neither of these systems seem fundamentally contradictory with a democratic government. As envisioned, they are more economic systems, than political. In practice, they both have produced repressive societies. How much is due to the economic system is a subject for debate, of course.

      I've seen successful communes, but only in the relatively short term. For them to be successful, there seems to need to be a unity of purpose that seems inconsistent with a democratic, pluralistic society.

      --
      -- Dan Jenkins, Rastech Inc.
    6. Re:He has a point by mdielmann · · Score: 1

      First, Marxism and communism are two different things. Of course, the only communist governments we've seen have been of the Marxist variety. I think even the Chinese government is very close to Marxism.

      Second, the GPL does put restrictions on what I can do with the information. I can't tack on my ideas, distribute the result, and keep the source to myself. Some may say that this is a good restriction, and beneficial, but it is still a restriction. If you want a truly unfettered license, look at the BSD-style licenses. You can use the source wherever you want, whether it be GPL, typical closed-source, or most any other license. And even that isn't freedom. Freedom is being able to choose whatever license makes you happy, and not being mandated to use one or the other. So go ahead and use GPL if you like. Or BSD, Apache, Xfree86's, standard copyright, public domain, or whatever. Exercise your freedom.

      --
      Sure I'm paranoid, but am I paranoid enough?
    7. Re:He has a point by tarunthegreat2 · · Score: 1

      Yep, Democracy and Communism co-exist very easily in the Indian State of West Bengal. The State Government of West Bengal holds the distinction of being the ONLY democratically elected Communist government anywhere (and also happens to be the only one that goes peacefully whenever it loses the elections). That being said, I still think communism is inherently evil, no matter how good it sounds 'in principle'. All men may have been created equal, but they aren't born that way. Some are rich, the others poor, some talented, the others not-so talented. A free-market system is the only one that will eventually take care of all these disparities(with SOME, MINIMAL government regulation/legislation). Let's face it, the richest country in the world is a capitalist country, not a communist one, and saying that this is only true because communism has never been correctly implemented doesn't hold, because it's not like capitalism has been implemented "correctly" either, and yet it's still very successful wherever it is in force.

    8. Re:He has a point by Anonymous Coward · · Score: 0

      "Neither of these systems seem fundamentally contradictory with a democratic government."

      They are contradictory to Democractic goverment. Because Democratic goverment is a system where all the free men can get to gether and vote for differents thing conserning society(Greece). Communism is system where all the others has right to vote too, meaning women and slaves. So basicly there is no representive democracy in communism, it is either straight or some form of democratic centralism style of democracy.

      "As envisioned, they are more economic systems, than political"

      Actually you are right. Communism is based on idea that when you work you produce money. Communists claim that money you produce in capitalism goes to the hands of capitalists who controls goverment and people using this money. So they think that you will be more free when you produce money in state(in communism society) owned working place where all the extra money you make will go to benefit the state(society), not to the capitalists. And when somebody doesnt have significiant mounts of money than you, he/she will not be more equal than you.

      "In practice, they both have produced repressive societies."

      Yes socialism has produced repressive states like North Korea. But how can you claim that communist society has produced one.

      "I've seen successful communes, but only in the relatively short term. "

      I know that everything is relative, but are you seriously claiming that example history of Iroqui tribe was succesfull only short period of time.

    9. Re:He has a point by doj8 · · Score: 1

      > Yes socialism has produced repressive states like North
      > Korea. But how can you claim that communist society has
      > produced one.

      China I believe claims to be a communist state, not a socialist one.

      >> "I've seen successful communes, but only in the
      >> relatively short term. "
      >
      > I know that everything is relative, but are you seriously
      > claiming that example history of Iroqui tribe was
      > succesfull only short period of time.

      I was speaking about communes I've personally seen. I grew up at a time and in the neighborhood of several. One of them, a religious society, which is now almost defunct did have a long history (well over a century). The other communes didn't last long.

      I was unable to find any discussion of Iroquois society as being communist, per se. The longhouse concept is more clan-oriented, from what I gather. So, communal in the extended familial sense, not communist in the economic sense. I am not knowledgable about them, despite having ancestors from the tribe.

      --
      -- Dan Jenkins, Rastech Inc.
  18. As a self-appointed representative of ... by burgburgburg · · Score: 2, Insightful

    the drug company multi-nationals, I'd like to strongly dissuade everyone from pursuing this idea. If the "people" are free to concentrate on unpatentable, abandoned and unprofitable medicines in some sort of collaborative effort, this will severely hamper our efforts to develop ever faster erectile dysfunction medicines, baldness cures in a pill form, medicines for newly created social "disorders", drugs to strip the carbs out of everything (or proteins or whatever the new black is) and have people pay top dollar for them. Stop rocking the boat and someday we'll find a cure for something (as long as it's profitable).

    1. Re:As a self-appointed representative of ... by Anonymous Coward · · Score: 0

      If you want to know why companies are spending money doing research to find cures for baldness, "erectile dysfunction", and other lifestyle problems you have no further to look than the ignorant whining of those who think medical advances should be given away for free.

      If company A spends hundreds of millions of dollars doing research and clinical testing for an AIDS treatment they will bring a product to market and have the whining brigade claim that now that all of the hard work has been paid for by someone else it is time to force the creator to make the product free for all.

      If company B spends its millions learning how to keep your limp dick useful on the unlikely chance someone else out there cares, it can charge whatever it wants because no one is going to come knocking on their door demanding that the treatment be made free "for the good of humanity."

      Guess which company is going to be generating a better return on the investment risked by its shareholders?

    2. Re:As a self-appointed representative of ... by LarsWestergren · · Score: 1

      Who was the kooky mod who gave that insightful?

      this will severely hamper our efforts to develop ever faster erectile dysfunction medicines, baldness cures in a pill form, medicines for newly created social "disorders", drugs to strip the carbs out of everything (or proteins or whatever the new black is) and have people pay top dollar for them.

      Look mods, he is being sarcastic. It deserves "funny", not insightful.

      --

      Being bitter is drinking poison and hoping someone else will die

    3. Re:As a self-appointed representative of ... by sugar+and+acid · · Score: 1

      There is no profit in curing something. Now a continual treatment for a chronic ailment is where the money is. Get the patients tied to a medicine for the rest of their lives and watch the cash role in.

  19. Re:Hmmm by maxwell+demon · · Score: 2, Insightful

    Then all the technical superiority of the western world is based on communism? Because that technical superiority is to a large part based on research following this principle. I doubt that research would be as far as it is were this principle not followed.

    Indeed, one of the main measures of scientific success is the number of publications (unfortunately not taking into account the quality of those), that is, you are considered a better scientist if you added more to the community. Indeed, that measure can be crucial to your career (if you don't publish your results, i.e. don't share, then you'll never get far in the scientific community).

    Note that also the incentive of the patent system was to encourage people to share their knowledge. You cannot patent something without publishing it, and that means after your patent expires, it's free knowledge for anyone to use.

    --
    The Tao of math: The numbers you can count are not the real numbers.
  20. With mixed feelings by Anonymous Coward · · Score: 0

    Check out www.emboss.org. We used this software in lab I used to work in. Too bad its plug is being pulled.

  21. Linux for Biotechnology by Anonymous Coward · · Score: 0

    Check out http://www.randomfactory.com/
    for cd distributions of Open source Biotech software prebuilt for Linux.

  22. About time. by Irvu · · Score: 1

    Considering that, in the U.S. at least, most basic medical research is carried out at taxpayer expense it is about time that the fruits of that labour be availible to all taxpayers.

    1. Re:About time. by Anonymous Coward · · Score: 0

      Er...Um...Wrong...The Pharma industry funds more than half of all medical research in the USA. This is very well documented...try google or ask a librarian for help...

      http://archive.parade.com/2004/0321/0321_quiet_h er o.html (among other sources)

      "Who do you think pays for medical research in the U.S.?
      A majority of Americans think the government (i.e., taxpayers) pays for most of the medical research conducted in this country. FACT: While the federal government still is--just barely--the largest investor in academic research, biotech and pharmaceutical companies currently finance more than half of the research conducted in the U.S."

  23. Re:Hmmm by aussie_a · · Score: 0, Offtopic

    Democracy is like "you vote for a guy and then the Supreme Court will decide"

    There are successful ways to implement something and unsuccessful ways to implement something. Communism isn't inherently bad, anymore then Democracy is. But look at Iraq, that was a democracy.

  24. Not gonna happen by Anonymous Coward · · Score: 0

    Who is the biotech equivalent of M$, eh?

    Surely this corp would show the same love to open source as M$ do? ;)

  25. Hmmmm by cannonfodda · · Score: 1

    As someone who works in bio-nano-tech it sounds like a great idea. With one obvious flaw......Drug companies! They will probably instantly knock the living bejesus out of anyone who actually publishes. They already use the academic community as hired monkeys, since the information only flows one way (and the profits). Once the trillioin dollar profits are on the line the gloves will be off.

    --
    Hmmmmmm
    1. Re:Hmmmm by Anonymous Coward · · Score: 0

      Any discoveries you make can still be shared without fear if you do it as an Anonymous Coward. Then it can still be picked up by the third world.

    2. Re:Hmmmm by Anonymous Coward · · Score: 0

      Puh-leeze. I'd love to know how you can make trillions of dollars of profits in a market that is only measured in the billions. I know junior high is boring -- maybe some day you'll grow up and compete like an adult.

  26. Wired already covered this by spacefight · · Score: 1

    In an article some time ago, this was covered already. It's quite interesting ro read, the relation to biotech is on page 4 (Monsate et al).

  27. good idea by Da_Slayer · · Score: 4, Interesting

    Having these types of projects being "open source" is a very good idea. The exchanged and access of information will not only allow more people to work on a project but for medicines it would in theory make them safer. Instead of having to take a drug companies word about a product you would have direct access to all the research and testing of said product from the beginning to the end.

    This open source idea for medicine and science would run into the same problem that open source software runs into. Greed.

    People trying to get more money because they think they are entitled to it. Some examples would be Microsoft and SCO.

    CEO Darl McBride who is at the helm of The SCO Group is leading the charge so to speak against open source software with claims to owning rights. Honestly most people realize this is a bid for them to be either bought out or to gain money from legal battles. This strategy is employed because it has the potentional to make money. SCO having not really made any innovations and in a steady decline over the years in terms of revenue and stock value has choosen this path. Now personally I think it was McBride's idea based on his track record with IKON Office Solutions. But then again the shady nature of SCO and it's parent company (explained here: http://www.forbes.com/2003/06/18/cz_dl_0618linux.h tml )have to make you wonder.

    Microsoft on the other hand was sued due to a patent being violated by their Internet Explorer web browser. Reference here: http://news.com.com/Microsoft+appeals+Eolas+decisi on/2100-1032_3-5228882.html

    Not to get into a rant about IP and software Patents but both of these cases show how money can be obtained through legal matters instead of the time honored method of working for it. No matter which way either case goes the problem is with old laws and ideas messing up the free (as in beer) trade of ideas and information.

    Hopefully in the science field something like the above examples would not happen but there is always a chance. Big drug companies would not go quietly into the night if their development processes suddenly became public access and with more competition driving overall prices down. Big business loves to stay as BIG business.

    Personally the idea behind "open source" science and medicine is very sound and will help many people in the long term. I just hope the process of it becoming free is less painful than the software industry.

    --
    Push harder towards Open Media/Content
    1. Re:good idea by Anonymous Coward · · Score: 0

      Having these types of projects being "open source" is a very good idea. The exchanged and access of information will not only allow more people to work on a project but for medicines it would in theory make them safer. Instead of having to take a drug companies word about a product you would have direct access to all the research and testing of said product from the beginning to the end.

      As if you would have enough knowledge to make this decision...

      Here is a great idea. Instead of having government supervised panels of learned doctors evaluate medicines and weigh the benefits of a treatment against the side effects and other data that comes out of large-scale clinical trials we should have a bunch of ignorant morons throw their voices into the mix.

      This open source idea for medicine and science would run into the same problem that open source software runs into. Greed.

      No, it runs into a whole other set of problems. Ingorance and cost of production. Any idiot, even you, can buy a cheap PC, read "learn visual basic in 24 hours", and a couple of weeks later you can turn out software that helps your fellow computer-usrs catalog their porn collections. The barrier to entry in the software market is very, very low.

      This is not the case in medicine, because the consequences of failure are significantly higher. We insist that people go through almost a decade of specialized training before we will even listen to ideas they may have regarding medical treatments. In order to make these advances these people have to work for companies that can buy millions of dollars worth of specialized equipment for them to use in experiments; there are no cheap gene sequencers sitting on the shelf of the local techmart.

      Even once you make what you think is a discovery, it will take years of further research and INCREDIBLY EXPENSIVE clinical trials before you will be given the chance to go before a governement review committee and try to convince them that all of the money and time spent in making this discovery has produced something which provides more benefit to the patient than the side effects cost that patient.

      Personally the idea behind "open source" science and medicine is very sound and will help many people in the long term. I just hope the process of it becoming free is less painful than the software industry.

      The idea behind "open source" in software COMES FROM SCIENCE YOU MORON! Academic research and peer review has been around for centuries. Did you think that it somehow sprang forth from the mind of Richard Stallman while he was momentarily at one with the universe? The reason that open source has very little application in real medical research is that all of the low-hanging fruit in medicine has already been plucked, and the remaining discoveries are expensive to find, expensive to test, and even then the people doing all of the work and spending all of this money have no way to know beforehand whether or not their research will lead to anything useful.

    2. Re:good idea by Da_Slayer · · Score: 1

      Okay lets clarify a few things.


      As if you would have enough knowledge to make this decision...

      Here is a great idea. Instead of having government supervised panels of learned doctors evaluate medicines and weigh the benefits of a treatment against the side effects and other data that comes out of large-scale clinical trials we should have a bunch of ignorant morons throw their voices into the mix.


      Well since doctors know everything we are all going to be saved right? Wrong. The FDA in all their glory do a semi decent job of picking out what drugs should go on the market and what shouldn't. Having said this they have made some mistakes on having drugs on the market and removing drugs from the market. Ephedra right any bells? ( www.fda.gov/oc/initiatives/ephedra/december2003/ )

      As for your tirade about the expense and obstacles to the development process of medicine I think you forgot a point or two. A good portion of medical research is done at colleges/universities around the world. Where students (some paid others not) do a significant portion of the research. Furthermore when a patent runs out on a drug there are usually knock off brands released immediately. If the production cost was so high then how do these companies make the same drugs for less and sell them to the consumer for less?

      As for your comments about Open Source and science let me relate it to the whole drug testing/approval process. Science and academic information sharing is not free (as in beer free) for the public. I can go and download the source code to any open source program and use it at no cost.

      If I wanted to know how NSAIDs (nonsteroidal anti-inflammatory drugs) compare to the products made by McNeil-PPC I would not have the same options. I would be able to get some data on a published study they did. But what about the thousands of hours of studies and trials done before a company brings a drug to the market. Access to that information is near impossible. Sure you can read about a report they published in one of the free medical journals but that journal is not going to have all the test cases listed where 1% of the people reacted badly to this medicine and they also happen to have an allergic reaction to something else on file.

      They do give us information, just not nearly enough for us intelligent individuals to form any real conclusive notions. I am not going to fully accept a report that paints the outcome with a broad brush. What about that .5-1% or more of cases that do not match their statistical data.

      Lets for example say that I am allergic to Ibuprofen. Meaning that I would have a reaction to it that happens in less than 1% of all people who take it. Now when drugs are designed they are tested over and over again, compared with other drugs on the market and relation data between different drugs can be drawn. Hence the idea behind drugs being listed in seperate classes. Now an individual can look at this data and make an inference based on previous experience and choose the right drug to use for an illness. This would be for choosing non-prescription drugs for common problems like headaches or a cold.

      Anyway my point was not to supplant the FDA or any of the current systems in place in the medical industry. It was to point out that giving us more information will not hurt anything.

      Personally having access to all the information before making a decision about anything is preferable.

      --
      Push harder towards Open Media/Content
    3. Re:good idea by ksymoops · · Score: 1

      A good portion of medical research is done at colleges/universities around the world. Where students (some paid others not) do a significant portion of the research. Furthermore when a patent runs out on a drug there are usually knock off brands released immediately. If the production cost was so high then how do these companies make the same drugs for less and sell them to the consumer for less? Well it is true that the true cost of producing the physical pill or injection that administers a drug is relatively low, this is entirely counter-acted by the incredibly high cost of researching (a process which can run anywhere from 2 to 10 years with very low yields), testing (which usually takes about 10-15 years), and finally getting approval (which takes about 2 years) for a new drug. Of any given set of 5000 drugs entering preclinical testing, on average only 5 progress to human testing, making biotech one of the high risk and costly markets in existance today. The average cost of researching and developing a new drug is about $500 million, with most drugs never recouping their initial cost. All in all, the United States biotech industry spent $10 billion in the year in 2000 on research, with that number rising rapidly over the course of the last decade. I would like to see how the public sector could provide this amount of funding and manpower for research.

      --
      Never put off till run-time what you can do at compile-time. -- D. Gries
  28. Re:Hmmm by ahfoo · · Score: 2, Informative

    Well, it has been argued many times and there is abundant evidence to support the notion that the success of the US wouldn't have been anything like it has if it weren't, in fact, a fairly socialist nation.
    Teachers like to joke that the Democratic party is actually merely a front for the National Education Association and it's not that far from the truth. And when you look at this huge pillar of the American community that is the education system, you can easily see that it is a form of welfare state.
    Look at the recent shake-up at Disney to knock Eisner down a peg. Who did that? That was done by the California Pulic Enployees Retirement System, CalPers. So, all the rhetoric about America fighting against socialism is just that, we've been socialists all along.

  29. One problem I see.... by jwcorder · · Score: 1
    The only problem I see with this is that for most of the world, people work hard on something so that they may profit from it. I am not bashing open source as it is a great way to do software. But you can't alway apply great things to other parts of the world.

    For an opposite scale view, I wouldn't start a company that designs houses and just give away the blue prints. I just don't think that it will work across the board. In an ideal world it would, but just how Communism looks great on paper, when you apply ideas to a real world environment they don't work; people just aren't that nice. No one really wants to give away their ideas for free...or at least most people don't want to invest money in an idea or principle not looking to make a profit.

    I am just glad that Open Source movement works in the IT world. It's not even the mainstream way to do it, but luckily the minority of people who believe in something, do the majority of the computing in the world. That's why it works.

    That's just my opinion....it's probably wrong.

    --
    http://jayceecorder.blogspot.com
  30. Is OSS encryption a paradoxical thing -I think not by essreenim · · Score: 1

    Yes, yes...the future IS open source, we all know
    I've always believed it, its a pity we are so slow to move towards this goal. If theres any hope for sustainability and equality and peace for the future, the principle of open source needs to prevail everywhere in everything in my opinion.

    _= Funny question=_: ->

    ->Do you believe in OSS in encryption. In some peoples eyes Im sure its probably a contradiction - How can you embrace OSS if you want to encrypt everything, but I think its a beautiful thing. AES is public encryption and Im sure there are a good few OSS implementations of it, and I would also argue its well implemented because of scrutiny from the public.

    I believe in a future of OSS everything, but still, secrets to still exist!

    But really, doesn;t this open up a whole argument.
    For me for example!, I have no problem with Microsoft encrypthing everything, as long as they still show us whats beneath all the encryption - which they don't obvious;y,..interestin argument in my opinion...

  31. Open Source Ecoinformatics by ahaly · · Score: 1

    We (http://www.ecoinformatics.org/) develop open source software for ecologists to help in there research. We have multiple projects. (http://www.ecoinformatics.org/projects.html) For example, KNB (http://knb.ecoinformatics.org) is a server that we maintain. It is like a library for datasets. Ecologists can store the datasets which they collect from their research. In turn search can be done on the datasets based on various attributes like geographic, taxonomic or temporal informations. The server is based on a software that we are developing - Metacat (http://knb.ecoinformatics.org/software/metacat/). There is also a java client that we are developing for interacting with the server - Morpho(http://knb.ecoinformatics.org/software/morp ho/). And both of these talk to each other in EML - Ecological Metadata Language. (http://knb.ecoinformatics.org/software/eml/) Cool stuff!!! All of the above are open source and can used by anybody.

    1. Re:Open Source Ecoinformatics by ahaly · · Score: 1

      Ok - the above post can easily win the award of worst formated post on Slashdot. So without worrying about Karma, I am going to repost the info. :)

      We develop open source software for ecologists to help them in their research. We have multiple projects for this.

      For example, KNB is a server that we maintain. It is like a library for datasets. Ecologists can store the datasets which they collect from their research. In turn search can be done on the datasets based on various attributes like geographic, taxonomic or temporal informations.

      The server is based on a software that we are developing - Metacat. There is also a java client that we are developing for interacting with the server - Morpho. And both of these talk to each other in EML - Ecological Metadata Language. Cool stuff!!!

      All of the above are open source and can used by anybody.

  32. Already open source by Anonymous Coward · · Score: 1, Informative

    A lot of development in bioinformatics is already open source. Check out http://www.bioperl.org http://www.biojava.org

  33. Won't Work by kaellinn18 · · Score: 4, Insightful

    I don't think this will work, and let me tell you why. First off, let me preface this by saying that my wife is a soon-to-be pharmacologist, so while I may not have any firsthand knowledge of this, she knows what she is talking about.

    1) The cost of research for pharmacology is infinitely (no not literally) more expensive than it is for computer science. In most research for CS you just have to pay for cost of equipment (basic computers typically costing a hell of a lot less than the specialized machines used in development of medicine) and the salary of the researcher. A lot of CS research can be done by one person. For pharmacology you have the cost of equipment (or even the USE of it, sometimes they have to rent time on more uncommon machines; this happens in CS as well, but not nearly as often since it's mainly for the processing power) as well as the cost of the researcher AND his/her assistants. It's almost impossible to do good research in medicine by one's self because of...

    2) It takes freaking forever. The number of steps required to find out if a proposed theory for a molecule even has a chance for working is phenomenal. My wife has spent the past few months trying to see if a certain molecule will bond with an AIDS neutralizer. Mind you, this is just the first step. Even if this step does work (which they don't know yet) they don't know if this molecule will a) bond with the aids virus b) will it bond long enough to neutralize? c) if it does bond, will the neutralizing agent be able to reach the virus? or will it be blocked by the bonding molecule? And the list goes on. No pharmacologist who does this for a living is going to volunteer even MORE time out of their lives for no pay. So we'll pay them right?

    3) Funding. Right now almost all pharmacology is financed by companies that already have patents or by third party investors. These people invest money into these projects because they expect a profit as return. Yes, I'm sure they also care for the well-being of others, but they do need to recover their costs if a drug succeeds. A vast majority of projects fail, which is why a lot of specialized medicines cost so much. These companies need to stay alive in order to do more research. And don't even talk to me about Federalizing the research. That would be pretty much the dumbest thing ever.

    I'm sure there are holes in my argument, but hopefully this will at least provide food for thought and further discussion. Basically, I just don't see it happening.

    --

    --------
    This isn't the sig you're looking for. Move along.
    1. Re:Won't Work by Anonymous Coward · · Score: 0

      All three of your examples are direct mirrors of the computer industry 30-50 years ago. Circumstances in the computer industry changed drastically because of advances in technology, it is entirely plausible that similar changes will occur in the biotech field. For example, consider the possibilities if we had near-perfect simulators for any and all biological systems and processes. Now imagine if these simulators ran on everyday PCs. Developments of that magnitude are easily conceivable as happening in the next 10-20 years.

  34. Still huge costs for testing and trials by Retired+Replicant · · Score: 1

    This sounds like a great idea on the surface, but any new drug or treatment still needs to go through a hugely expensive clinical trial process to verify safety and efficacy (at least in the developed nations). No company is going to invest hundreds of millions of dollars to put a drug through the clinical trial process (laboratory testing on cultured cells, animal testing, trials with human subjects) if it is not going to be able to have a patent at the end to recoup their costs. The only way for patent-free drug-development to succeed is for governments and international bodies to fund the trial phase. And even then, the allocation of resources will be subject to a political process because there is not enough money to do all of the research that is demanded by every "disease special interest group." Developing new drugs just requires way too much money for it to done using the OSS model. Even outside of researchers' time, there are big costs associated with specialized lab space, equipment, materials, and the costs of compensating human subjects, insurance, etc. In the vast majority of cases, private donations will just not cover all of the costs.

  35. ... but not very realistic expectations. by JackL · · Score: 2, Interesting

    Nice sentiments, but no one really expects reduced research costs, more competition in the bio-tech industry, or consumer scrutiny simply by "open sourcing" biotech info.

    Rather, what the article points out is that there are niches - diseases which disproportionately affect the poor, that affect few people, or for which the patent for a drug has expired - which are ignored by drug companies. The costs of development and meeting regulation requirements would not be recovered in these situations. The article proposes to use an "open source" model to address these niches.

    While the article does point out that a freer flow of information would help these situations, I think what the authors really want is the large army of (largely) volunteer brainpower that open source software has.

  36. So let me make sure I have this right... by TheHonestTruth · · Score: 3, Informative
    You're saying a few good drug manufacturers, some of the best in the world, could make the drugs. And then people that know nothing about medication, or don't want to be involved in the drug creation process, could then use the drugs free of charge or mix the drugs as they see fit?

    No offense man, but that is fucking insane.

    My wife manages clinical trials and the amount of oversight is crazy. The hospital had to call her at 1:05 AM so she could approve a change in dosing a patient because the nurse was literally 5 minutes late in adminstering the drug because the protocol said "administer at 1 AM."

    The point is, biotech costs a ridiculous amount of money. And even "the best in the world" aren't going to give up their research for free.

    -truth

    --

    I had a steady B+ in my AI class until I failed the Turing test...

    1. Re:So let me make sure I have this right... by Lord_Dweomer · · Score: 2, Interesting
      Perhaps I need to clarify further. When people use software, often times they use it through a front end which takes care of the complex parts. I am not saying that I want people to be tinkering around with every single little detail of the stuff (although if they feel qualified they should be able to at their own risk), but if there were some sort of front end that could handle the complex tasks, and let people customize biotech to their needs with no risk (similar to selecting something from a drop down menu) this would be a great boon to society.

      Now, obviously what I'm talking about is REALLY far down the road, but ultimately thats where I hope we arrive.

      --
      Buy Steampunk Clothing Online!
    2. Re:So let me make sure I have this right... by nelsonal · · Score: 3, Insightful

      25 years ago one of the better business minds said the same things about the brightest coders in software. Go check out the open letter from Bill to the hobbiest coders. Software costs a ton of money, one wouldn't have expected the brightest minds there to just give a way their research for free. Bill Joy is arguably one of the biggest innovators in the software business, and most of his ideas (SPARC, vi, BSD TCP/IP stack, c shell, aruguably JAVA) have been free since he first thought them up. There are a tremendous number of parallels betweeen the drug industry and the software industry from a financial perspective. Both require signficant R&D to develop new products that then require almost no cost to produce (what chemicals go into drugs and how much do those cost). Also plenty of software carries lives on the line, software controls the ATC system, powerplants, those drug distribution machines, your financial life (imagine if you were to be erased from all your electronic sources of cash-how long could you survive?).

      --
      Degaussing scares the bad magnetism out of the monitor and fills it with good karma.
    3. Re:So let me make sure I have this right... by Anonymous Coward · · Score: 2, Insightful

      Yeah, you know absolutely nothing about the biotech world. Biotech drugs can be enormously expensive to produce. Bioreactors to manufacture antibodies cost millions of dollars. Open source has worked because computers are cheap and easy to come by, bioreactors and various other machines (spectrophotometers, ELISA readers, etc.) are ungodly expensive. Suffice to say no lay person can afford to produce biotech drugs, so stop trying to draw a parallel that doesn't exist.

    4. Re:So let me make sure I have this right... by Otter · · Score: 2, Insightful
      There are a tremendous number of parallels betweeen the drug industry and the software industry from a financial perspective. Both require signficant R&D to develop new products that then require almost no cost to produce (what chemicals go into drugs and how much do those cost).

      Absolutely not. The R&D costs for software development are almost entirely* for salary. That's why developers with commodity hardware and software at home, willing to code for free, can make significant contributions. Salary costs in biomedical research are trivial compared to other research costs. That's why I'm a biologist, but I write code as a hobby instead of conducting clinical studies at home.

      But, as you say, maybe I'm wrong the way Gates was wrong. Anyone willing to step up and prove me wrong?

      * Plus, of course, the costs of testing and usability studies. Do you want your chemotherapy to have the level of refinement of the Debian installer?

    5. Re:So let me make sure I have this right... by c0bw3b · · Score: 1

      At one point in our history the same could be said of computer equiptment. Along the lines of "Computers take up whole wings of buildings, no lay person can afford to do complex math, that would be ungodly expensive."

      --
      ||:|::
    6. Re:So let me make sure I have this right... by Zork+the+Almighty · · Score: 2, Insightful

      To what extent would public universities be willing to foot the bill? After all if the drugs go into the public domain and people get cheap treatments, that is a direct benefit to society. It would seem to be in line with universities' mission. Whether funding boards, etc, etc, can be convinced to spend the money is of course another question entirely, but a few high-profile successes would probably bring them around.

      --

      In Soviet America the banks rob you!
    7. Re:So let me make sure I have this right... by Anonymous Coward · · Score: 1, Insightful

      True, then you acknowledge that it would be AT LEAST 20 years before this could even be considered feasible, and to be honest there are hundreds of times more people involved in pharmaceuticals and biotech now than there were computer people involved back then.

    8. Re:So let me make sure I have this right... by Joe+Tie. · · Score: 1

      Do you want your chemotherapy to have the level of refinement of the Debian installer?

      Good point, bad example. Cancer runs very heavily in my family, and I'd be thrilled to find that chemotherapy had advanced 'to' the point of the debian installer. As grateful as I am for what has been acomplished in the field of cancer research, as far as treatment goes I'd say we're still in the level of grunting and smashing.

      --
      Everything will be taken away from you.
  37. Costs aren't the same... by One+Louder · · Score: 4, Insightful
    This needs to be thought out, because the cost and regulatory structures for, say, drug development, aren't nearly the same:

    1) Developing new drug products requires substantial, very expensive facilities, while the hard costs of software development are very low.

    2) Drugs must go through a long and expensive testing and regulatory process before being released to the market. Open Source software simply wouldn't exist if it cost millions of dollars and took several years before you could release it.

    3) There are massive costs associated with product liability in drugs - no one would give away software if the same liability exposure existed.

    4) For every drug that makes it to market, there are dozens to hundreds that don't make it through the process but incur the costs of development anyway. The unsuccessful attempts are subsidized by the successful ones.

    While I think that the sharing of information in biotech is generally a good thing, I don't think the economics mesh with a software-like "open source" model.

  38. It isn't the patents that make medicines expensive by rlglende · · Score: 1


    It is the cost of complying with the regulations of the FDA and other country's regulatory agencies.

    A patent is only a mechanism for getting a return on the investment, and therefore allowing developing anything new in a capitalistic system.

    Non-capitalistic systems don't work very well.

    So, if you want cheap medicines and more medical development, the place to start is abolishing the FDA and all the other regulatory agencies.

    These agencies cost lives: they prevent, to some extent, the use of dangerous or contaminated drugs and foods, but they do so at the cost of preventing the development of 1000s of new drugs per year and, most important, new points of view. For example, the FDA does not recognize aging as a disease, so won't evaluate any drug designed to prevent it.

    Lew

    --
    "The Constitution, the WHOLE Constitution, and nothing but the CONSTITUTION."
  39. The article underestates what is already done. by ahfoo · · Score: 1
    While the author conceded that sharing data in biological studies is not new, he seemed to imply that there was something novel about collaborating on data rather than software tools and I think there are really many many examples of open colaboration in biology.


    What is much more interesting, in my opinon is open source lab hardware and, in fact, there is such a thing. There is a team at at UCSD who's whole lab is dedicated to using plain old PC-CDRoms to do analysis of samples. That is far more empowering for the open source style of operation than just some academic collaboration that has settled on a database format.


    The project is called Discode. I've written to the guy who is the head of the project for my own biotech site I started putting together last year. Right now they have a web page that is very cryptic, but they're looking for kernel hackers who have experience in CD-ROM drivers. Now, that's hot. That's real open source. At my still not quite public site, I have a few links to press releases of their first published paper on their work.

    1. Re:The article underestates what is already done. by ahfoo · · Score: 1

      Here's a link that goes straight to the "story" it's really just a note. But it has a few links and I think one of those has their PDF that is an awesome read.

  40. Healthcare Informatics OpenSource Projects by amdg · · Score: 2, Informative

    I've been working in Healthcare IT for nearly 9 years. As an open source advocate, I am really excited by the progress and interest I've seen lately in FOSS solutions in the healthcare realm. There was a time that I thought the open source model would never work in vertical markets. Boy, am I glad I was wrong! Check out LinuxMedNews to get an idea of how much is happening in this area.

    Here are some links to projects that I find interesting and seem to have the most traction:

    There are many, many more. These are just some that came to mind. If you work in healthcare, do yourself a favor and check out this thriving community!

    1. Re:Healthcare Informatics OpenSource Projects by Anonymous Coward · · Score: 0

      The artical is talking about discovery / clinical trials in the pharmacutical sector. All the products you have listed are HOSPITAL/DOCTOR/PATIENT systems not pharmacutical systems.

      its a different sector dude

      The exception is OiO, but this is for outcomes research, which is typically done by uni's and hospitals.

  41. Follow through rate of Drugs by artlu · · Score: 2, Interesting

    Big Pharmas tend to develop hundreds of drugs per year. However, any drug that has a cost of production greater then 10% of its total cost is usually squashed due to the market. If those drugs were "given" in a "open source" manner, maybe some of those drugs would make it farther to help people. Who knows what drugs could have been developed and then squashed because it wouldnt make money?

    Anyway, im trying to get a new website off the ground right now. If you are into the stock market or day trading then please check it out at GroupShares.com

    Thanks,
    Aj

    --
    -------
    artlu.net
    1. Re:Follow through rate of Drugs by Anonymous Coward · · Score: 0

      Big Pharmas tend to develop hundreds of drugs per year. However, any drug that has a cost of production greater then 10% of its total cost is usually squashed due to the market.

      Got a source for this innaccurate claim?

      If those drugs were "given" in a "open source" manner, maybe some of those drugs would make it farther to help people. Who knows what drugs could have been developed and then squashed because it wouldnt make money?

      And who would pay for the clinical trials and testing needed to turn a good idea into a useful treatment? Perhaps we could go test it on the poor and helpless, or randomly select open source coders and forcibly test our new medical treatments on them. Sound like a good idea? Let me know when I can sign you up for this new parkinsons treatment I heard about, it is speculated to only cause fatal side effects in 15% of the population taking the treatment...perhaps you will get lucky.

  42. Um.. ok by k98sven · · Score: 1

    Just some examples of how bio very much is open already..

    In biotech software, there's lots of open source. BioJava, BLAST.. etc.

    As for what they're talking about, e.g. databases.. Most data already IS open. The human genome, protein structures and sequences.

    1. Re:Um.. ok by Anonymous Coward · · Score: 0

      But the article is not talking about making the raw tools and resources for biotech research open, it's talking about making the marketable results themselves open -- no proprietary formulas for drugs, etc.

  43. Biotech vs. Programming by suchire · · Score: 1
    One of the problems with Open Sourcing a lot of this is that either companies will have to sign on to begin this, which is unlikely until it's become established in the industry by some other means, or people will have to work on Open Source out of their own generosity to begin with. This is fine with programming, but if you try to do biotech with this, you run into all sorts of practical issues not found in the virtual reality of programming. In order to do research and publish, you have to have a lab and materials, all of which are rarely priced towards individuals. In general, you can program with a machine that's under $1000 dollars.

    Now, Open Sourcing knowledge may be a good or bad thing. In general, though, drug companies do research for patents, yes, but they also publish, so it's not like the academic community is getting cut out of the knowledge that drug companies have. Some of the most effective and innovative synthetic procedures for organic chemistry, for instance, were researched at Merck and published into the academic community.

    --
    Such irE
  44. Opensource GM by Anonymous Coward · · Score: 0

    I'm all for opensource GM crops. But who's going to test to make sure it is doing what it suppose to do?

  45. Open Source Viruses? by abb3w · · Score: 2, Interesting

    Um, I really don't think we want lots of people able to develop biological weapons in their basement. We already have enough problems with script kiddies making computer viruses, you'd think they'd learn.

    This may be one of those technologies which creates a problem, the resolution of which is that the civilization making it gets knocked back to where it can no longer make the technology. (Classic examples from Science Fiction include certain general-purpose teleporters, as discussed in Niven's classic "On the Theory and Practice of Teleportation", and to a lesser degree the time viewer in Asimov's "The Dead Past".) I suppose that's one solution to the Fermi Paradox....

    --
    //Information does not want to be free; it wants to breed.
  46. anyone got a billion bucks... by Anonymous Coward · · Score: 0

    because that's how much it takes to develop a new drug...

    unlike software, where you can buy an IDE from compusa and crank away for under $100 (or for free)...pharmaceutical research and genetic study requires truckloads of cash...

    1. Re:anyone got a billion bucks... by Anonymous Coward · · Score: 0

      how come this comment didn't get a higher rating?! this comment is exactly the same as one above and they got a 4:Informative!

      this rating system is bogus man!

  47. True by Pan+T.+Hose · · Score: 1

    The similarity between open source and the academic process with their 'you share, I share' principles is shown by the human genome project.

    Very true. "If you have an apple and I have an apple and we exchange these apples then you and I will still each have one apple. But if you have an idea and I have an idea and we exchange these ideas, then each of us will have two ideas." -- George Bernard Shaw (1856 - 1950)

    This is propably even more insightful when applied to biotechnology than to software at large.

    Speaking about biotechnology and free software, check out the bioperl project:

    "Officially organized in 1995 and existing informally for several years prior, The Bioperl Project is an international association of developers of open source Perl tools for bioinformatics, genomics and life science research.

    "Facilitated by the Open Bioinformatics Foundation we work closely with our friends and colleagues across many projects including biojava.org, biopython.org, DAS, bioruby.org, biocorba.org, EnsEMBL and EMBOSS.

    "The Bioperl server provides an online resource for modules, scripts, and web links for developers of Perl-based software for life science research. We can also provide web, FTP and CVS space for individuals and organizations wishing to distribute or otherwise make freely available standalone scripts & code."

    Very interesting.

    --
    Sincerely,
    Pan Tarhei Hosé, PhD.
    "Homo sum et cogito ergo odi profanum vulgus et libido."
  48. Drug costs by that_xmas · · Score: 1

    Yeah, open source biotech sounds like a great idea. However, the high cost of drugs isn't caused by the research end of the work. The high cost comes from getting the drugs approved for human use. This cannot be open sourced since it is really, realy controlled testing.

    The only way I can think of to reduce this cost is to create an independent, non-profit organization that does the work to get the drugs FDA approved (or even supplants the FDA as an arbiter of drug safety, like Underwriter's Labs does for electronics.)

  49. Greed is greed open or closed! by Anonymous Coward · · Score: 0

    >>Moreover, the results of the research would not be made available under an open-source licence of the kind that governs software projects. Instead, the final development of drug candidates would be awarded to a laboratory based on competitive bids.

    Now why would the results go to the highest bidder? This Open Source BS is for rich and greedy corps to get the work done for free. They leave just enough open to say that anybody can do it, but tie your balls to a door post. Anyone, other than the those with the means, are allowed to manufacture it. Just smoke and mirrors to make everybody think they are contributing to a just cause.

  50. news flash! by Anonymous Coward · · Score: 0

    Science is very expensive!

    Lets make it free and then it won't be so expensive...there's just one problem all those hours spent in industry research to develop new reagents / methods. It also has a price, as in other people's effort...which requires compensation, other then the promise of better medicines 10 years from now.

    The anology would be develop and produce open source hardware to interface with open source software. Surprisingly, the former is not just effort intensive, its expensive, and its more than just a hobby.

    --remember someone needs to pay for processor and hardrive.

    My solution : More grants!

  51. failed research by harrytuttlehvac · · Score: 1

    what about research that is failed or inconclusive? this data has to be of use to someone, deadends and culdesacs are still a part of the larger map even if they dont go anywhere.

  52. Open source != hobbyist by gotr00t · · Score: 1
    I tihnk that the grandparent poster made a bad point by comparing software development to medicine, because in essence, it is completely different. While there is a lot of room to make mistakes in software developement, and the ability to learn though trial and error, the same is not true for mecidine, there is little, if any, margin for error.

    However, open source software is created by not just hobbyists and organizations of them, but also by corporations. Take MySQL AB, for example, their software development process is based on an open source model, and their database software is one of, if not the most widely deployed. The same could be true for pharmeceudicals, it just matters if a corporation can find a way to make it work.

    Moreover, I cannot help but feel slightly insulted by your commentary on medicine and anatomy takes years of study to understand, as same is true for computer and electrical engineering, or any field for, that matter. Anyone can use a computer, and even begin to develop software for one, but in order to truly understand how computer systems operate and develop effective software, it requires many years of undergraduate and graduate study. To assume that all open source developers are the unwashed masses that don't have any formal education in the field is to make a horrible mistake. You would be suprised at the level of education of the average contributor to the Linux kernel, for example.

    1. Re:Open source != hobbyist by Anonymous Coward · · Score: 0
      You're kidding, right? The average contributer to the Linux kernal tends to have a four year degree, and maybe a couple of technical certificates. The average doctor has been in training for eight or more years.

      I love computers and I love working on them, but let's not be stupid.

  53. You have missed the point..... by Anonymous Coward · · Score: 0

    I work in the pharmacutical sector (IT in clinical trails).

    Have you any idea how a drug gets to market? Not only do you have to find a drug (discovery) but you have prove a drug works and doesnt cause unwated side affects (clinical trails). All goverments have mandatory regulations requiring all drugs to go though an approval process. This approval process is very complicated and requires a massive amount of man time.

    In the USA you have to pass the FDA regualtions.
    In Europe you have to kinda of submit to europe and the individual counties (EU regs are a mess)

    However the IT systems used by pharmcutical companies are, frankly, a mess. In addition pharmacutical companes get fleased by a few software vendors (SAS,documentum). Why the pharmacutical sector doesnt switch to using open source for their IT systems i really dont understand. I'm not talking Linux here.

    For example, All the pharmcutical companies could donate 1% of their SAS license to an open source project to write an open source version of SAS. The industry would save billions (yes SAS is THAT expensive)

    Every pharmacutical company has 100's of standard operating procedures for comply with FDA etc regs. Why not open source these?

    There are some small open source projects for the pharmacutical sector, but industry sponsership/awareness is almost non existant.

    Al

  54. No surprise here, but it will never happen by twigles · · Score: 1

    Open source (and by open source I'm thinking mostly of the GPL. I know other variants exist.) and the academic world share a different overall goal. The idea is to *advance the field*, not the wallet of anyone who controls the process. I'm talking about those MBAs who slice and dice everything to add dollar signs everywhere. Those MBAs are the same people that are in charge of the biotech research, not the geeks that do the research. It's all about the finance department.

    I'm not really anti-capitalism, but I think the US has taken things toooooo far. Very extreme "me first" mentality.

    This is big money we're talking about. No way is this stuff going to get let out the door without a lot of people taking their cuts.

  55. yeah yeah yeah yea indeed by Anonymous Coward · · Score: 0

    you guys are totally nuts I guess.

    all the OSS guys write OSS because they have a job that feeds their kids. OKAY? if you tell them they are out of their job, they wil turn their energies to doing somethign that wil pay the rent, and only after that will they turn to providing the world with free code.

    Also, I have seen some crap that goes into OSS. I have seen ppl who have known java for a day go make changes to some pretty deep java code and check it back in.

    I certainly do not want that in my drugs, thank you.

    or may be because of the success fo a few OSS projects, people think that all OSS is great??

    yeah, and how exactly are oSS drug developers going to make money? by offering support to people who turn blue and breathless from their drugs? or offering dosage advice to people who buy their drugs?

    maybe it will be like : oh here are a list of ingredients you can buy and here's how you make this drug. you need gcc, a good matchbox, a cauldron.. and you might have to tweak the firewookd a little..

    and yeah, a lot of edcation goes into making a scientist who develops drugs. as of now universities have nto reduced phd programs fees to zero.

    just understand, tie spent on developing things have VALUE.

  56. Well, maybe for some parts... by EricTheFish · · Score: 2, Interesting

    It appears that open source is making its way into the data side of things... See the The RCSB Protein Data Bank , the human genome sequencing, etc.

    But the bottom line is the following:

    It costs (currently) about US$800 million to $1 billion to develop a drug. That is all of the initial trials, screening, 3 phase clinical trials, etc. This is typically a 10 year process-(there are some exceptions, but this is generally true).

    The _reason_ why any company would invest this sort of money is so that they could have a monopoly on making it for 20 years. If everything were open sourced, and anyone could make anyone else's drug, why would companies put this much money into developing it? They would have no incentive to do so.

    As someone else mentioned- this is not the sort of thing that you can just do in your basement. The company I work for makes a fancy robotic incubator to help you crystallize proteins. People want to do this so they can put them in an xray machine to get their structure, which can lead to possibly designing drugs that might interact with that protein. This machine costs about US$250,000. People need it because protein crystallography is hard- there's no way to predict under which conditions it will crystallize. You typically need to try 10,000-100,000 different conditions to get a reasonably sized crystal, that you can diffract and get the structure from. Some proteins _never_ crystallize.

    This is way before you are even trying _anything_ in a biological screen, let alone animal trials, let alone phase 1, 2, and 3 (human) clinical trials.

    If you do successfully crystallize the protein (and determine the structure, which is very straightforward once you have a good crystal), you can (and everyone does) submit it to the protein databank, and you can publish these conditions in a paper. So in this sense, lower level biotech is/becoming open source. But the higher level stuff requires a lot more thought and resources.

    I'm not saying that there's no waste or greed in big pharma- Of course there is, like any other industry. Perhaps its higher than average, due to the large potential amount of money to be made.

    My point is that the places that open source is successful- coding, which requires a $300 computer with an internet connection; wikipedia, which requires the same; there is a very low cost of entry to contribute. Even if companies and universities start open sourcing the lower level stuff more than it is now, Animal and human trials costs very large sums of money. Why would a company invest $10's of millions on one part of a trial if someone else could end up making (and selling) the drug?

    I agree that cheap drugs would be great. But if its open source, and people start dying because of a side effect of the drug, who is liable? Not to mention who will fill out the FDA paperwork (there has to be $10's of millions invested just in complying with the paperwork. I've heard estimates that it is basically a medium sized room full of paper. And that's for 1 (one) drug.) -E

    --
    -ETF EOM
  57. yes, but careful by curator_thew · · Score: 1


    If you read the articles, the economist takes a balanced approach, it clearly lauds the open model in some places, but it does acknowledge that the model doesn't work in other places.

  58. What are the tools used for Bioinformatics? by totierne · · Score: 1

    Hopefully there are open source tools that I can get to know that will shift my computing skills up into a more profitable segment of the market, or maybe one that will be to the greater good.

    I found a list of software used in http://bioinformatics.org/softwaremap/?form_cat=2 but I really need some insight from someone in the know what the top ten programs I can learn and be of use to more leaned users, such as writing scripts to get the damn things to work together fo example.

    Just my 2 cent.

  59. Human genome project? by PCM2 · · Score: 1

    Last I heard, the human genome project was a great model of cooperation ... if by "cooperation" you mean "cutthroat race between competing academic and private-sector groups"...

    --
    Breakfast served all day!
  60. open source genetics... by Segfault666 · · Score: 1

    I am not one who would enjoy open source genetics. Granted the potential learning curve for all those with interest but what about those with interest to harm? Punishing a pc virus/worm writer is one thing - but what about another virus write who happened to re-release the Bubonic plague or some other serious virus leading towards epidemic.

    With an open source human genome this may add to more disaster if it's modified to attack something specific? ... Perhaps, say race?! There are a lot of organizations with fair chunks of flow that, if they determined could release a bacterium, virus or bacteriophage resulting in the genocide of a populace. Yes It's hard to believe, but well, the human 'source code' is a lot more intricate than something on your average PC (read: more options of control and specificity).

    This is just the terror stepping stone, how much 'good' will come out of open source genetics? how much 'bad'?

    That said, I, personally am one for OpenSource EVERYTHING. If that causes us, as a species, to erradicate ourselves then so be it; it just shows that we're too stupid to continue our existance.

  61. Uh... It already is by lockefire · · Score: 1

    From my experience (I currently work in the biotechnology sector) most information is already 'open source'. If you take into account all of the public universities and not-for-profit institutions (Mayo Clinc, TIGR, NIH, etc), you will find that most research is done in the public sector. All of the methodology and results are published (which can cost to get a copy, but you can always request one from the author for free - authors get hundreds of copies of their article) and are available to anyone who wishes to repeat or further the experimentation.

  62. For GM Organisms by shylock0 · · Score: 1
    This makes a lot of sense for GM organisms, particular crops -- open-source genetics. It means that farmers can reap the advantages (pun intended) of GM crops without the nasty side effect of becoming a slave to agrobusiness, which is one of the primary (and most legitimate) arguments against the widespread introduction of GMO in the third world.


    For the moment, lets assume that we're only dealing with basic GM (accellerated hybridization) and not transgenic crops -- although, click here for a great article about how GM crops will save the environment. You can also hit up this editorial in, of all places, the Yale Daily News.

    --
    Statistically speaking, there's a 99.998% chance that my IQ is higher than yours. Get over it.
  63. That is not how Research is done! by hung_himself · · Score: 3, Interesting

    The Economist is usually very good in its bioscience articles. This article is completely abyssmal - the person who wrote it has absolutely no understanding of how scientific research works. and that is not flamebait but the sad truth

    First of all, we are a bio-informatics lab - all the software we produce is open source. This is not the exception but the rule.

    The motivation behind our research is not profit and again, in academia that is the rule not the exception.

    The article states that if aspirin were the cure for cancer - it would not be developed because there would be no profit. If that is true then it is a reflection, not of a flawed scientific research model but rather a flawed biotech/pharmaceutical model

    Researchers like myself would be looking into it - because it would be INTERESTING and scientifically important regardless of whether it would be profitable.

    Basic scientific research is done by publicly funded labs like ours. The results are freely communicated. Biotech companies use our results to make money (and rightly so) but in the end do very little basic research - because, as the article says, - it does not pay. However let us not get the two confused as our poor "science" writer did. The NIH funding model may not be perfect- for example there is probably too much emphasis on western diseases like cancer rather than third world problems like malaria - which sort of creeped into the article. And it is appalling that we have 10 versions of Viagra rather than cheaper generic chemotherapy alternatives but the blame for that does not lie with the lack of basic research but further down in the R and D food chain.

  64. FOSS model by Anonymous Coward · · Score: 0

    Lets face it, the OSS model has a lot of uses outside of developing software. This is something I think about alot. Any process that requires or can benefit by constant refinement from any interested party can shine using a similar development model.

    Take for example a company based in hardware - any electronic product, tvs, steros, washing machines, whatever - opens up all specs, design docs, everything. Letting the public see how the machine works inside and out. Just like operating systems you're bound to have SOME people with expertise in the subject area who are interesting in improving the the companies implimentation purely for advancement of the technologies. While consumers like you and I may feel no direct benefit from this in itself, if their patents were available for all to use under similar conditions to GPL (Not BSD. BSD is a license to TAKE. GPL is a license to SHARE.) competition would benefit consumers.

    It's not quite the same, I wouldn't be able to take those specs and make myself a free version of their product. I won't have half the equipment I need or the parts. Linux just requires source, compiler and a computer. I would probably get a cheaper product due to competition, Company would lower R&D costs and will have fresh minds pouring over their designs, pointing out flaws and general overall refinement over some CVS styled system.

    Rambling... Time to hit da bong

  65. Open Source search for nature's pharmacologicals by Darth+Cider · · Score: 1

    Most pharmaceutical research relies on a combinatoric approach: create many variations of a substance then test each one in an array to see if it binds with known cellular structures, then test those that bind for useful properties. Nature produces complex substances that have scarcely been catalogued, but a "lab on a chip" microarray could make it possible for large scale screening by ordinary people, testing soil microbes in their backyards. (Microbes that might be indegenous to that backyard and nowhere else in the world.) The array would simply have to indicate a positive hit, not decipher the entire chemistry of the active agent--that would be done at pharmaceutical headquarters. Such a method would employ the distibution of workload that makes Open Source work, would be practical and inexpensive, and could even make money for microbe prospectors, if there were some mechanism for profit sharing on derivative medicinals.

  66. If software was like biotech... by Jim+McCoy · · Score: 1

    Then you could write all the code you wanted, but in order to run the compiler (or interpreter) even once you had to pay a million dollars. If your program generated compiler errors and you needed to run it again after fixing your code you would need to pay another million dollars for the compiler run.

    Still think that open source would exist in this world?

    What people posting to this thread seem to ignore is that fact that it is easy to come up with a good idea in biology and hiddeously expensive to turn a good idea into a useful treatment. These costs are not going to go away because people tend to care a great deal about what medical treatments are conducted on fellow human beings. This concern manifests itself in length regulations and review processes that turn any clinical trial into a multi-million dollar expense that might not lead to a working treatment.

    Software is easy and the capital cost for its production is very low. Biotech is the exact opposite.

  67. Re:Hmmm by tarunthegreat2 · · Score: 2, Insightful

    I wouldn't say all along. America has been capitalist for most of its history, IMHO. But yes, there is definitely a small gradual trend towards socialism these days (ignoring the current buffoons in power). But I think this is a natural trend in all the rich countries. First y'all go thru a phase of hard-core intense capitalism and then when you've finally started reaching a certain level of wealth, the upper crust starts giving back to society, even if it is a trickle. But I think starting out socialist is a BAAAAAD idea for any new nation - i.e. India. It started out socialist and is NOW moving to the fre-market. Try breaking the entrenched attitude that the Government is there to do everything for you, and that you must accept what is given. The one thing that a capitalist economy will give its citizens is a good work ethic - i.e. work hard, and only deal with the govt. when things go wrong. But in socialist countries, people develop a dependent mindset, and this totally screws you over. "If you give a man a fish, he doesn't go hungry today. If you teach a man to fish, he never goes hungry..."

  68. Open Source Drugs! by Anonymous Coward · · Score: 0

    If every single bug found in Linux since it's creation could be considered a harmful, or even fatal, side-effect, how many people would have died in the clinical trials of Linux? Of course, those clinical trials would have been carried out on free, open-source test volunteers... or would it be on free mice from the open-source mice ranchers? Not to mention all the chemicals needed to actually produce the drugs... which would of course come from the open-source chemical engineers! How many people would actually contribute to open-source if every time they compiled their code, a megabyte of RAM disappeared from their computers?

  69. After 10 years - the year of the GNU/aspirin - by Anonymous Coward · · Score: 0

    But the GNU/aspirin won't work right because it will have been forked hundreds of times.

    That's OK. Everyone will be real happy with it because it's FREE and comes in many colors.

    A few unfortunates will die from taking GNU/aspirin - that's OK because they didn't RTFM.

  70. Been there under another name? by smchris · · Score: 2, Interesting

    Sounds similar to the discredited [*cough -- Reagan *] idea of giving unencumbered federal research grants for universities to develop exploitable ideas for the common good?

  71. Research Costs by ddelrio · · Score: 1

    I think that the primary difference here is that contributors to open source software projects are often developers working on these projects in their spare time. Biotechnology, unfortunately, involves expensive equipment. Unless they've just got electron microscopes and mass spectromoters and atomic scales laying around, I don't think the model is applicable.

  72. Time to plug PLOS Biology by Xofer+D · · Score: 3, Informative

    This is already happening. Behold PLOS Biology, the Biology journal of the Public Library of Science. This has been around for some years and was started up by Michael Eisen of the Eisen lab at Lawrence Berkeley. As Slashdot history will attest, I found the original introduction of the PLOS to be insipiring and in fact it led me to take up my current career in natural language processing (because someone has to search through all that science!). I had the pleasure of talking with Dr. Eisen at a presentation he made at VANBUG recently, and he was very enthusiastic about hearing that NLP people are interested in working on searching and managing open science information, so I again urge you to help out projects like the PLOS (not just Biology, although that's the only current journal).

    --
    The Signal/Noise ratio can be improved in two ways. Remaining silent is the OTHER way.
  73. I am kind of for this by LiberalApplication · · Score: 1
    Even if you scratch build equipment yourself (which I've done) its still going to cost you, and try convincing peer reveiw or god forbid, Mr. FDA that your findings on non-validated equipment is worth anything...

    Fortunately, it won't be very difficult at all to convince the local teens that your home-engineered ultraweed and hypercrack are worth a month's allowance.

    On a more serious note though, although the research itself may be cost/circumstance prohibitive, I can see potential in open-source projects for producing tools for data analysis and potentially for the analysis of public domain data itself. The projects being open sourced don't necessarily need to be the *source* of the data, y'know.

  74. You underestimate the overhead involved by seafortn · · Score: 1

    I think you underestimate the effort involved in "monitoring" a trial. Most trials have at least one dedicated statistician working with the clinical researchers to make sure that the results are analyzed properly - just on this basis, I think that "tens of thousands" of statisticians, or even an even thousand, assuming they can each work on ten current trials at once, would be required to continuously update the trial results - hardly a low-cost center...

  75. This will expand??!?!??!?!!!!! by rice_burners_suck · · Score: 1
    I think there are a lot of areas, besides software and bioinformatics, that benefit greatly from the concept of freedom and openness. Consider the area of technical literature, for example. What better way to sell a hardware product than to give people the information they need to fiddle with it and make it do cool new things?

    Speaking of hardware, I once read about a project to design a RISC processor in an "open source" manner, where the only cost incurred would be in manufacturing the darn thing. I don't know where that ended up, but if it disappeared, that's a real shame. I think it would be awesome if a community of hardware hackers could put together an entire hardware specification that doesn't need to be burdened with all the backwards compatibility crap that commercial stuff must adhere to, and I could see that becoming an integral part of the projects to make free operating systems and other components. Who knows... But yes, open source will probably expand to other areas of business. It probably won't happen overnight, but it will happen...

  76. benchKeeper.com by nettdata · · Score: 1

    As long as we're plugging stuff, here's my shameless plug for my little (100% commercial, NOT open source) software company that makes affordable reagent management software for Life Sciences labs.

    benchKeeper

    In a market where Laboratory Information Management Systems (LIMS) software generally costs $50k and more, we're a drop in the bucket at an entry price of $2k.

    While we're not open source, or free (we have developers and infrastructure to pay for, but the principals don't take a salary), we are trying to provide a software option to the small, under-funded labs that will help them do their job. You would be AMAZED at just how archaic some of the labs are when it comes to information management... in most cases, it's ALL paper-based. 3-ring binders for Cryo storage tracking, etc.

    We're Canadian, so anyone in Bio Tech will probably know just how incredibly under-funded CDN labs are. That's where we learned our trade, and that's how we're trying to give back. (We also offer a 60% discount to educational institutions)

    --



    $0.02 (CDN)
  77. this is nothing new by DrFrob · · Score: 1

    I always thought of the way science has been done for the last two hundred years as being "open source." All science is currently available in journals and anyone can use the information in the journals as long as proper credit is given. So what is this article trying to say? We should keep doing things the way we have been?

  78. Idea not new... by Anonymous Coward · · Score: 1, Informative
    Lincoln Stein, a very famous bioinformatics programmer and creator of a vast amount of perl modules like CGI and GD, gave a talk about this last month.

    The talk was his acceptance speech for the 2004 Benjamin Franklin Award at the BioIT-World conference.

    The award was presented by bioinformatics.org. In his speech Lincoln talked about essentially open sourcing the R&D process and leaving the manufacturing and distribution to big Pharma. Thus, in theory, allowing academic R&D to push new drugs towards current public health concerns versus the money making drugs big Pharma produces now.

    Not likely to happen but interesting to think about.

  79. Gee, that reminds me... by Autumnmist · · Score: 1

    When you have a hammer, everything looks like a nail...

    I'm writing this from the biotech company I am interning at this summer and everyone here knows full well that personalized medicine, genomics, and all that are not understood. We know almost *nothing*. When pharma and biotech companies "develop" drugs, they generate thousands of compounds and slowly eliminate one by one in hope that in the end, they *might* end up with one single effective compound. And then, they do studies on that compound in an attempt to figure out how it works. And guess what? We *still* don't know! We can make educated guesses based upon our data and experiments, but that's all they are... guesses.

    In addition, open source software is successful because you only need your brain, knowledge of programming, internet access, and a computer ($500+ nowadays) to contribute.

    To do research? Well, a good mass spectrometer goes for nearly $1 million today. High throughput, fast PCR machines... oh about $4000... Pipettes need calibration at least once a year... gotta pay the tech who does that work. A micropipetter costs about $100 per pipette. To do genetics research, you need a 2uL, a 20uL, a 200uL and a 1000uL -- at *least* that. To avoid contamination you need at least one extra set for dealing with samples. That comes to oh... $800. Then, pipettes must be sterilized which means an autoclave. Add $2000 or so. Pipette tips are disposal because it's impossible to avoid contamination otherwise. Each box (must be sterile, DNAse and RNAse free) costs $30+. A single scientist working in a lab can go through two boxes or more PER DAY.

    Open source biotech? Give me a break.

    --
    --- "Many of the truths we cling to depend greatly on our own point of view." ~ Ben Kenobi, 'Return of the Jedi'
  80. Amateur Genetic Engineering by TheSync · · Score: 2, Informative

    I have links to many sources for amateurs to become involved in (peaceful) genetic engineering at DNAhack.com.

    For example, there are Web sites where you can type in a list of DNA bases, and in a few days either get your custom DNA snippets (aka oligonucleotides), or even get the DNA delivered inside bacterial plasmids (aka custom genes). With custom genes, it is a simple kitched-top operation using heat shock to insert the custom genes into strains of research E. Coli.

  81. parallels by theCat · · Score: 1

    OK...when I think about this matter there are some parallels between computer/network technology development and the discovery/reinvention of biotech.

    1) Both fields began as, and largely remain, academic pursuits;

    2) Both deal with systems of enormous complexity that exhibit emergent properties;

    3) Both focus on the macro-scale, visible results of the interactions of a huge number of microscopic, essentially invisible, components.

    I could go on. But you get the point.

    Single companies, and single individuals (aside from a few rare geniuses) do not adequately deal with systems having such characteristics as those just listed. It is all simply too big, too fragmented and too obscure for one human mind to either anticipate or encompass all at once. Advances in these fields *emerge* from the shared thoughts of countless individuals, often over hundreds of years. Via writing, speaking, teaching, email, chat, /. etc, we together study what is out there, just beyond the reach of any one. As through a glass, darkly.

    Here is the real danger; we allow commercial enterprises to dominate the field of [network technology | biotech ] and to allow their narrow, myopic view of the subject, driven by greed of possession and control, to lock humanity out from the only means of adequate study, which is collective. If that happens, then we will for a long time content ourselves to nibble around the edges of [network technology | biotech] waiting for some greater genius to pull away from the throng and raise up our eyes to what is really possible, which if we are unfortunate may never even happen. It is not all about money. Sometimes it is about doing the right thing for the greater good. And generally doing the right thing means sharing, even though you stand to give up control. [Network technology | Biotech] has great potential, but that potential will be realized and acted upon by all of us, together, freely, and with knowledge of our personal responsibility to contribute to the progress of our kind. All great things have become great in this way, all triffling things have become forgotten because the majority of humanity did not participate. What is open is shared and what is shared is preserved and built upon. All else vanishes into nothing and is lost.

    --
    =^..^= all your rodent are belong to us
  82. For the gloom and doom above posts by Seraphim_72 · · Score: 1


    Yeesh, take a microbiology class.

    The cat has been out of the bag for a very long time as far as making your own killer microbe. Hell, you can order kits to teach kids how to grow thier own antibiotic resistant germs, all you need is an incubator (or anything (can you say old oven) that you can hold a steady temp at). Publishing this sort of this would do no harm, and would significantly speed up drug research, and drastically lower prices. In any event the very huigh end stuff you need for gene sequencing is already tightly control, so no, Osama aint going to be making a "super anti-Satan" germ anytime soon.

    Sera

    --
    Slashdot, where armchair scientists get shouted down and armchair theologians get modded up.
    1. Re:For the gloom and doom above posts by Anonymous Coward · · Score: 0

      Please explain re the controlling stuff. I've never heard this before. Most I've heard is that they check you are a company, your name against a blacklist, and they are shipping to a known billing commercial address.

      Seems gene sequencing material is something that is least harmful compared to what you can do with many of the biotech chemicals or genetic engineering materials (e.g. restriction enzymes).

  83. No, Nano/bio will nake university a dinosaur.. by Anonymous Coward · · Score: 0

    In the next 25 to 50 years (not a long time, if you consider historical timelines), the advances in nanotechnology and biotechnology (boosted by the open source model), will probably allow for the average person to be as smart and tallented as any "natural" tallented person today (sports and intellectual pursuits plus body mods (fur anybody?, that would be cool, just make sure you live in a cold climate first..) through brain interfaces that would allow an ordinairy person to aquire years on univerisy eduation/other people's life experinces through having a brain cybernetic nanotechnolgy interface. If this does happen, we will no longer have the concept of "elite" persons ruling over us, as anybody can become really smart and/or super athelete. Hopefully, money and personal material "stuff" will be easily obtain/recycled and rich people like Bill Gates will become an achronism and not rull over us anymore!! (cool!) Of course, we will need the open source model to do this and, also, like the chicken and the egg problem, you will need the establishment of nano/biotech to allow people to be able to easily mod themselves both brain wise and for personal looks too, and by this I mean that the first people to do this will need those 4 to 25 years of higher education to be able to pull off this technology, but with open source model, this technology will spread around to the average person who can then do any mods themselves, one word of caution, the future modder had probablly should have a lot of "data" like android/surgons robots (both local and remote internet access) around (with advanced nano-grown hospital facillties, state of the art, of course) with nano back-up images of what you looked like before the mod if anything went wrong, you would want to be sucessfully restored!

  84. Let me poke some holes for ya by Pragmatix · · Score: 1
    "Cost of specialized machines"

    These machines are expensive in part because of the limit numbers produced. If there was more demand for the machines, then the companies producing them would be able to lower margins by taking advantage of mass production techniques.

    "It takes freaking forever"

    Time will always be a factor, but think about the time savings if suddenly hundreds of scientists were collaborating trying to see if a certain molecule would bond with the aids virus.

    "funding"

    Just because ideas are shared does not mean that the drugs produced will cost consumers no money. There will still be plenty of money to make off the actual sale of the product. After all, it is common knowledge how to make donuts, but lots of companies do it and make good money doing it.

    Also consider another important aspect of drug research, the risk. Companies stand to lose a massive amount of money if something fails trials or turns out not to work well. If you have a lot more people working on something, you spread out the risk considerably.

    As far as clinical trials go, the government can simply grant limited production rights to the company that puts up the cash to get something through trials. Once the money is made back with a certain % profit, the game is opened and they have to compete with everyone else. Except they will already have a huge branding advantage.

    1. Re:Let me poke some holes for ya by CharlesEGrant · · Score: 1
      I think open source works just dandy for bioinformatics software, and is a hopeless pipe-dream for wet-bench biotech. Bio-tech is like software development in two ways: first, manufacturing and reverse engineering costs are a fraction of the cost of development, second they both require an educated and skilled workforce. Bio-tech is unlike software development because it MUST have a substantial physical plant, and the cost of physical consumables typically exceeds the costs of salaries.
      These machines are expensive in part because of the limit numbers produced. If there was more demand for the machines, then the companies producing them would be able to lower margins by taking advantage of mass production techniques
      They are also expensive in part because they are complex and contain precision components, so they might not get as cheap as you hope. But granting you that we get -80C freezers for the same cost as domestic fridges, we still have to provide wiring and power for them and the square footage for them to sit on (they are not small and you may need three or four of them per lab). Forget the hi-tech stuff, just consider paying for pipette tips, rubber gloves, and distilled water. Software development doesn't have equivalent consumables.

      Do you have an open source model for the army of technicians you will need? I mean I can see a PI working on a project for the excitement, fun and prestige, but what about the research techs doing everything from washing dishes to performing autopsies on the lab mice. Unlike programmers working on open source software they won't be able to tele-commute and a part-time commitment would be problematic.

      After all, it is common knowledge how to make donuts, but lots of companies do it and make good money doing it
      Yes, but none of them had to invest a couple hundred million to figure out how to make dougnuts. The issue is not recouping manufacturing costs, the issue is recovering R&D costs. The money can come from compulsory taxation (as with NIH/NSF), voluntary taxation (as with the Polio vaccine), or it can come from speculative investment. I still haven't seen anyone explain how open source is going to raise the money.

      the government can simply grant limited production rights to the company that puts up the cash to get something through trials
      Limited production rights? isnt't that basically a patent?
  85. So who'll be paying for the production? by ifwm · · Score: 1

    Unlike software that can be distributed for free (or very nearly so) how would the drugs be produced? let's say we open source the project, creat a new drug from scratch, and get it ready for trials. Who pays for the production facilities to MAKE the drug? The salaries of the researchers to TEST the drug? The inevitable lawsuits that arise from fucking up and making a really bad drug?

    You see, the problem with this in not the amount of technical knowledge involved, but the material cost. You will never have any process that actually produces a useful drug without having resources to produce, test, and deal with the consequences.

    Also, if 800,000 unrelated numbskulls make a drug that I end up getting, who do I go after if it ends up causing cancer/infertility/flipper babies?

    Open source in not the answer to everything.

  86. Blue Screen by NIK282000 · · Score: 1

    Your nervous system is no longer responding, you can wait to see if it starts to respond or re-boot and loose all unsaved information.

    --
    Dear aunt, let's set so double the killer delete select all
  87. Misinformation by Anonymous Coward · · Score: 0

    Ha! Used thermocyclers are NOT 10k, and you damned well can set up a sequencing lab in your basement. The sequencer would however set you back a fair bit though.

    I do sequencing for a living, and I make the oligos we use to do it, as well as keep the lab stocked and running.

    If you're trying to come up with an argument agains "open source bioinformatics," you're gonna need another example.

  88. Duh... by Anonymous Coward · · Score: 0

    BioJava

  89. Open Source? by Anonymous Coward · · Score: 0

    Get a job you god damn open source hippies. I'd like to see you guys invent something really good and make it "open source"!!! Give it all away for free, we'll make money off of the support. Lets make everything free and, we'll all hold hands and sing songs, and we'll all live off of the land! It will be swell.

  90. 100k deaths vs. facial hair removal: an anecdote by geekotourist · · Score: 2, Informative
    I'd written about the need for open source genetics in a Slashdot article on Smart Breeding to Beat Biotechnology. Locked-hood genetics is like proprietary software in many ways, including:
    • The (food/software) itself is secondary to locking you into a company's support products and support cycle treadmill
    • The proprietary product is often based on (taken from / stolen from) older open source projects.
    • they have all or nothing security models
    • They break standards.
    • they're closed source, top-down implementations that lead to monocultures.
    But as others have pointed out, software development isn't as expensive as biotech / pharma development. On the other hand, the potential cost to human lives of closed vs. open source development for biotech is also huge. We should be talking about it at least as much as we talk about SCO.

    For example, look at trypanosomiasis- sleeping sickness. Infects 500k/year, kills 100k/year, drives you mad before you go into a coma and die. The older treatment (Melarsoprol) contains arsenic (and anti-freeze) and kills over 5% of patients taking it. It also feels like injecting bleach into the body. Another newer treatment (Eflornithine) works better and has far less severe side effects. It was used throughout the 90's as the best treatment. However, Eflornithine was only commercially manufactured as a potential cancer treatment-- once found to not work on cancer, there was no reason to continue making it, and Aventis ended production of eflornithine in 1999. As the last of the old stock ran out, patients had to go back to the dangerous and painful arsenic treatment.

    Luckily for those 500,000 people per year, eflornithine was later found to have one important use: its a fine facial hair depilatory cream . So as the production of this drug was re-started to prevent the horror of unwanted facial hair, 500k people get the side-benefit of a non-arsenic treatment for a deadly disease. But only because eflornithine was found to treat excess hair, not because it prevents painful death.

    This is just one anecdote- one illness. The analogy to software can still be made: when Microsoft discontinues support for a product, people suffer from the time and money to upgrade. When Aventis discontinues support for a product, people suffer as well. It could be argued that eflornithine wouldn't have existed without closed-source drug development: but that doesn't seem to be the case here. First, while drug production is closed-source, basic research is at heart open-source. Sencond, Al Sjoerdsma, the scientist who first discovered its properties was apparently more of a Tim Berners-Lee type than a Gates or Darl McBride type.

  91. GPL for biotech.. by me.nick() · · Score: 1

    Brings new meaning to viral licensing

  92. I gave a related talk last year by mattr · · Score: 2, Informative
    Sept. 16, 2003 I gave a talk at GLOCOM called "Open Source, Open Knowledge: The New Alliance of Academia, Industry and Governments from East to West".

    That organization is an industrial / academic policy think tank and so I described open source, different uses of it, and suggested use of the GPL-like liscenses for research in bio/nanotechnology.

    I covered most of the objections stated in this thread but also noted an online talk by agricultural biotech people from around the world that was very interesting. Third world agriculture has been attacked by unethical corporations like Monsanto which use a suffocating mixture of intellectual property and biotechnology to make it impossible to develop without them, forever. These stakeholders suggested something like Open Source Life Sciences.

    However I also noted that while proteomics and discovery of pathways has until now been research given as a freebie to drug companies, at least in Japan it has been recognized that new legislation is necessary to enable development in these areas based on something like a patent.

    Nanotech (as the general public imagines it) however requires a far greater amount of basic research being farther away from becoming a product (of course it already is in lots of products, I am talking about machinery etc.) and so could benefit more from a GPL.

    The biggest drawback besides how to fund development and coordinate with commercial ventures is of course security a la Bill Joy ("some things we shouldn't make; we should monitor scientists"). And I have nothing against capitalism, I am simply interested in how to improve communication among scientists and use the Net to speed development. If money is what does it fine.

    But there seemed to me a number of interesting fields in which the open source / GPL paradigm could be useful and provide effective advantages especially for commercially disadvantaged participants.

  93. frogs and fluevogs by chloroquine · · Score: 1
    Mike Eisen and Pat Brown were both pioneers in recognizing the need for PLOS and the concept of non-commercial scientific publications. I've hung out with Mike a good few times, and he's a great guy - I had the opportunity to work in his lab, but wasn't able to due to personal circumstances. This is definitely a huge regret on my part.

    The cost of subscriptions to scientific journals are immense and foolish - even from the standpoint of someone who get free access from their institution. I'm often tempted to just give out passwords willy-nilly to anyone who needs them. It strikes me that the majority of publications in my field are owned by a very small number of companies who are not at all inclined to be competitive.

    That said, after my free paper subscription to PLOS biology ended, I haven't really looked at the site since. I guess the first few faltering steps have to be taken before it becomes more established and I automatically check it out every month like I look at the Cell/JBC/MCB/Nature/Science/EMBO/PNAS crowd.

    1. Re:frogs and fluevogs by Xofer+D · · Score: 1
      Since I now work in NLP rather than biology, I don't read many of the articles. I agree with your assessment of the salience of PLOS and the extortionate costs of journals. I don't agree that you should give out passwords willy-nilly... not only is it illegal, but also you remove demand for replacements. Just like so many people pirate Microsoft software - thus handing them more market share which is even more important than the sales they lose - if enough people can "get it from a friend" then there won't be enough push to get it from a noncommercial source. If the system is bad, replace the system - don't just make it bearable but still bad.

      By the way, your username is excellent.

      --
      The Signal/Noise ratio can be improved in two ways. Remaining silent is the OTHER way.
  94. My favorite Capitalism vs. Communism joke by Ohreally_factor · · Score: 1

    What's the difference between Capitalism and Communism?

    Under Capitalism, man exploits his fellow man. Under Communism, it's the other way around.

    --
    It's not offtopic, dumbass. It's orthogonal.
  95. sweet, innocent me? by chloroquine · · Score: 1
    Yeah, I know the double-edged sword of giving out passwords to journal subscriptions. But at a certain point, if I'm in lab and really, really need to take a look at a journal article - like I need the materials/methods section to do an experiment, or if I'm writing a paper and I don't know if I should be citing a particular reference without reading it more carefully - I'm more tempted by the expediency of getting it now now now, rather than waiting and going to the library to photocopy it. This assumes that the library actually has a subscription. I know I'm treading heavily into a very small version of the ends justifying the means - for me, in my tunnel vision of the world, the ends are me doing science and the means are me doing naughty naughty things. At the same time, if I step back, the ends of making all this stuff available to people for free or for some nominal cost, definitely justify the means of me not giving out that password, or getting that password from a friend. As a graduate student who is motivated by
    1. free food
    2. science
    it is sometimes hard to remember the larger-scale ends and means.

    Thanks on the username. I'm a total geek, what can I say. Used to run 2D gels with chloroquine in them; now, my little sister is in Africa doing cost benefit analysis on that new malaria drug. Funny how the world seems to be small.

  96. what many people don't know about universities... by TheHonestTruth · · Score: 1
    Is that they are some of the bigger patent holders, licensing their technologies to the private sector.

    Google around for some of the more bio/tech savvy Universities and you'll see what I mean.

    -truth

    --

    I had a steady B+ in my AI class until I failed the Turing test...