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Unreliable evidence? Time to open up DNA databases
,----[ Quote ]
| WHEN a defendant's DNA appears to match DNA
| found at a crime scene, the probability that
| this is an unfortunate coincidence can be
| central to whether the suspect is found
| guilty. The assumptions used to calculate the
| likelihood of such a fluke - the "random match
| probability" - are now being questioned by a
| group of 41 scientists and lawyers based in
| the US and the UK.
|
| [...]
|
| Without external scrutiny of the databases,
| doubts will remain, Mueller argues. "All of
| this... can be resolved by letting scientists
| have access to the data to do what they need
| to do."
`----
http://www.newscientist.com/article/mg20527424.700-unreliable-evidence-time-to-open-up-dna-databases.html?full=true
ISCB Licenses Virginia Tech's GenoCAD Software to Ensure Long-Term Availability to Open Source Code
,----[ Quote ]
| In an unusual move, the International Society
| for Computational Biology announced this week
| that it has licensed the GenoCAD synthetic
| biology software from Virginia Tech in an
| effort to help ensure the long-term
| availability of the software under an open-
| source license.
`----
http://www.genomeweb.com/informatics/iscb-licenses-virginia-techs-genocad-software-ensure-long-term-availability-open
Recent:
Will open source biology get anywhere?
,----[ Quote ]
| The big news is that this may be broadening. Sage
| is now trumpeting a âmajor donationâ (amount
| unspecified) from Quintiles, a contract researcher
| with 21,000 employees. Friend is now going around
| the world in search of more.
`----
http://blogs.zdnet.com/open-source/?p=4968
Sage Bionetworks, Biologyâs Open Source Spark, Snags âMajorâ Donation from Quintiles
,----[ Quote ]
| Sage didnât disclose how much the donation is
| worth in its statement announcing the news. But
| Friend, the founder of Rosetta Inpharmatics and
| former senior vice president of cancer research at
| Merck, said he had received $5 million of
| commitments from anonymous donors when he first
| publicly unveiled the Sage effort back in March.
`----
http://www.xconomy.com/seattle/2009/10/06/sage-bionetworks-biologys-open-source-spark-snags-major-donation-from-quintiles/
What might help open source biology most?
,----[ Quote ]
| A recession.
|
| The open source movement was launched in 1998, and
| the Free Open Source Software (FOSS) movement came
| much earlier, but it was the millennial recession
| I call the âdot-bombâ that put it into overdrive.
`----
http://www.smartplanet.com/technology/blog/rethinking-healthcare/what-might-help-open-source-biology-most/485/
Synthetic biology: Feasibility of the open source movement
,----[ Quote ]
| (Nanowerk News) Synthetic biology is developing into one of the most exciting
| fields in science and technology and is receiving increased attention from
| venture capitalists, government and university laboratories, major
| corporations, and startup companies. This emerging technology promises not
| only to enable cheap, lifesaving new drugs, but also to yield innovative
| biofuels that can help address the worldâs energy problems.
`----
http://www.nanowerk.com/news/newsid=11175.php
Extending the free software paradigm to DIY Biology
,----[ Quote ]
| Hierarchical, big, controlled and funded by taxpayers, venture capital or
| shareholders. The time of the amateur dilletante scientist seems to be over.
| It takes the huge, collective organisation of private individuals to
| challenge this monopoly. GNU/Linux has managed to make a significant
| challenge but what of open science, not just the actual use of free software
| as practised by CERN but utilizing the whole philosophy of organizing
| scientific endeavour on the principles of open source? Some amateur
| biohackers think they have the answer.
`----
http://www.freesoftwaremagazine.com/columns/extending_free_software_paradigm_diy_biology
How Open Source Biology May Rock Your World
,----[ Quote ]
| Drew Endy, an open source biologist currently working at Stanford, is a good
| example of why. Along with several researchers at MIT, Endy is working on
| synthetic biology and the engineering of standardized biological components
| and devices, known as BioBricks.
`----
http://ostatic.com/173578-blog/how-open-source-biology-may-rock-your-world
OpenSim on half a buck a day
,----[ Quote ]
| I recently decided to see what the big deal was about OpenSim. After
| initially installing it on my desktop computer and connecting to it with the
| latest Release Candidate viewer, I decided to try to set it up on an
| inexpensive hosting account to see how feasible it was to run a real sim live
| on the Internet. Today's blog post talks a bit about how I did it, it's not a
| how-to guide, and you'll probably need to be a bit of a Linux geek to follow
| along, but hopefully you find it interesting.
`----
http://emmanowhere.blogspot.com/2008/07/opensim-on-half-buck-day.html
Wndchrm - an open source utility for biological image analysis
,----[ Quote ]
| Methods: Wndchrm is an open source utility for biological image analysis.
|
| The software works by first extracting image content descriptors from the raw
| image, image transforms, and compound image transforms. Then, the most
| informative features are selected, and the images are analyzed.
`----
http://7thspace.com/headlines/286289/wndchrm___an_open_source_utility_for_biological_image_analysis.html
http://tinyurl.com/6ahcxl
The Systems Biology Research Tool: evolvable open-source software
,----[ Quote ]
| Conclusions: The Systems Biology Research Tool represents a technological
| advance for systems biology. This software can be used to make sophisticated
| computational techniques accessible to everyone (including those with no
| programming ability), to facilitate cooperation among researchers, and to
| expedite progress in the field of systems biology.
`----
http://7thspace.com/headlines/285711/the_systems_biology_research_tool_evolvable_open_source_software.html
New born BioPuppy Linux for Bioinformatics
,----[ Quote ]
| BioPuppy OS is an electronic workbench for bio-informatics and computational
| biology. It has been designed to meet the needs of beginners. BioPuppy is
| available as a live CD cum installation CD [and in USB Pen drive] and
| containing all the required software to boot the computer with ready to use
| bio-informatics tools.
`----
http://www.linuxquestions.org/questions/linux-news-59/new-born-biopuppy-linux-for-bioinformatics-642386/#post3154096
Related:
Open source synthetic biology
,----[ Quote ]
| Not everyone within synthetic biology takes the open-source approach, Andrew
| Hessel, an iGEM consultant who recruits teams from Canadian universities,
| told me, but the driving force behind it is iGEM and MIT (Rettberg works with
| renowned hacker-turned-synthetic biologist Tom Knight). Hessel likened the
| atmosphere to the time when computers were first becoming cheap enough to be
| affordable by anyone who wanted one, and young, bright kids began to play
| around with code.
`----
http://www.the-scientist.com/blog/display/53822/
Biology Goes Open Source
,----[ Quote ]
| Some of the world's biggest drug companies are finding that
| their genetic research is worth more to them if they give it away.
`----
http://www.forbes.com/business/2007/02/12/novartis-genes-diabetes-research-biz-cz_mh_0212novartis.html?partner=rss
http://tinyurl.com/2vqssl
Open Lab
,----[ Quote ]
| The open source wave could soon power drug discovery initiatives in the
| country. A decentralised, web-based initiative is emerging that would enable
| scientists from laboratories, universities, institutes, and drug Companies to
| work together in discovering new drugs for diseases like tuberculosis (TB),
| malaria, various types of cancer, AIDS, Chikungunya, Kala-azar, dengue fever,
| etc.
`----
http://www.financialexpress.com/news/Open-Lab/279490/
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