June 28th, 2009
We have missed recording c2cbio the last few weeks but we are happy to be finally interviewing Ricardo Vidal. Apart from blogging on his My Biotech Life blog , Ricardo recently started as “community liason” at Mendeley. We talk about Mendeley, the social aspects of sharing and tracking what we are reading and whats on the horizon for the platform . We then go onto chat about the usual c2cbio mix , synthetic biology , science blogging in a post-twitter world, how blogging still opens doors and other things online-science.
Interview Recorded on Thursday, June 26th 2009
Show Notes:
Ricardos blog :My Biotech life
Mendeley social software for managing and sharing research papers
Ricardos interviews with Victor Henning one of the co-founders of Mendeley
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Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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June 14th, 2009
In a long overdue episode 20, Hari and Deepak talk about a lot of old topics. Old since the podcast was recorded a while ago, but some of the discussion is still pertinent. Hari blames writing papers and Deepak blames all the interest in cloud computing.
Show notes
Wolfram|Alpha
Learning from StackOverflow
Royal Society acquires ChemSpider
Cheminformatics with Hadoop and EC2
Chemcaster
Janelia Farms - The whiskey portion of the show
Links of the week
Hari: Free programming books
Deepak: tricki.org
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May 3rd, 2009
In Episode 19, Deepak and Hari talk about Synthetic Biology, Grand Challenge Winners and Protein Engineering.
Show notes
A synthetic biology company bites the dust
iGEM closes doors to amateurs
Protein Power
Reflect
Active Research
This Week in Virology
Pierre does Hadoop; on a laptop
Jaunty Jackalope
Google Code supports Hg
Ensembl Genomes
Links of the week
Hari: 25 great free resources for making charts
Deepak: Develop.Github
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Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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April 12th, 2009
Trying to do the TWiT thing and find a funny headline. Let’s see if this sustains. In this, the longest episode of c2cbio yet, Hari and Deepak talk about crowdsourcing, JoVE, managing patient records and a bunch of other little things
Show notes
There are crowds, and then there are crowds
Can someone confirm that JoVE has gone closed access?
Managing your own patient record
Python moves to Hg
ZFS
The end of SGI
Links of the week
Hari: PyCon Videos
Deepak: Passenger PrefPane
You can always send us podcast ideas by posting items to the Friendfeed room or tagging items in delicious with for:c2cbio
Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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April 5th, 2009
In Episode 17, we have a very spirited discussion on the role of libraries in research, about Summer of Code and data-driven analytics
Show notes
Nescent has the list of the bioinformatics project proposals for the Google Summer of Code 2009
Libraries of the Future debate on FriendFeed
The unreasonable effectiveness of data: Alon Halevy, Peter Norvig, and Fernando Pereira at google discuss natural language processing vs more complex models that harness huge pools of data.
Are your coding skills current ? Whats hot in the coding language world ? TIOBE has the list.
Exciting news in the Python world after Pycon 2009, Unladen swallow: A team of five engineers announces a project to increase the speed of Cpython five fold using LLVM
On the Ruby front, we have ActiveResearch, a gathering of science geeks at RailsConf and Paulo Nuin has a Ruby in Bioinformatics Blog
Links of the week
Deepak likes the concept behing the news stories site: http://thesciencebehindit.net/
Hari was checking out Jessenollers blog for some pythonic wisdom
Incidentally, we now have a Friendfeed room where we can carry on with this and other conversations
You can always send us podcast ideas by posting items to the Friendfeed room or tagging items in delicious with for:c2cbio
Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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March 26th, 2009
In episode 16 we discuss a recent meeting that Deepak attended, the vagaries of crystallography, infrastructure buildouts, announcements by Nature and Innocentive and scalability (and a secret outtake)
Show notes
Sawzall
Jimmy Lin
USC gets a grant for grid computing
Innocentive and Nature team up
ChemSpider coming to a phone near you
Scaling at Twitter using Scala
Database sharding
Links of the week
Eli Bendersky
Spectral Game
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Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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March 19th, 2009
On Episode 15, Hari and Deepak discuss a great TED talk by Sir Tim Berners-Lee on how the web needs to be about data, databases and APIs that allow the data to talk to each other . CC0 is finally out and Deepak tells us why this is important.
Show notes
Tim Berners-Lee at TED
Harold Varmus on the Daily show : How we need to focus on science and fundamental research
Zeroing in on the public domain attribution with CC0
Sleeping with the enemy? Friendfeeders sound off on collaborations with Microsoft and we chime in
Links of the week
Deepak: Build SNP reports with Promethease
Hari: Blogging crystallography Stephen Curry blogs on NNB and Ted Ericksons P21212.com (check out the cool video links to movies made by James Holton)
Footnote: Hari goes ga-ga over the Kindle
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March 12th, 2009
Episode 14 was quite a blast. We talk about the popularity of R, and new, ambitious and heavily hyped projects by Stephen Wolfram and Stephen Friend
Show notes
How Google and Facebook use R
Stephen Wolfram’s Wolfram|Alpha promises to impact the way we query data and look for information.
“Sage” is a $5 mil funded organization founded by (former) Merck’s Stephen Friend and Eric Schadt to create a scientific commons platform to do better genomics inspired drug discovery research
We talk about the great success of Galaxy Zoo and how the next phase of the project is using Amazon Web Services to scale better
Mendeley aims to be the “Last.fm of Research papers” according to Ricardo Vidal, who recently signed on as community Liaison
Links of the week
Hari continues with his python kick with Scipy.org
Deepak was checking out freemat.org an open source matlab clone that packs quite a punch
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You can always send us podcast ideas by tagging items in delicious with for:c2cbio
Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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February 27th, 2009
This started off as a regular episode in which we were going to discus a few stories. But a talk given by Joel Dudley, resident Bioinformatics specialist in the Butte lab at Stanford, which Shirley Wu blogged about was just too good to miss. The issues raised in this blog post were so close to our heart that we spent all of 45 minutes talking about them .
Show notes
The shortest shownotes this far:
Joel Dudley on software engineering in Bioinformatics
Shirley wu : Tips and tricks for software engineering n Bioinformatics
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Google Summer of code needs BioInformatics mentors and volunteers
Links of the week ( thanks wlad for pointing our the omission)
Deepak was digging the datasets at the infochimps and Hari likes Matplotlib
You can always send us podcast ideas by tagging items in delicious with for:c2cbio
Please give us your feedback either in the comments or by emailing us at hari — at — bioscreencast [dawt-com]
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February 12th, 2009
In Episode 12 , Hari who had just finished a remote data run collecting diffraction data at the Berkeley synchrotron talks about his experiences; Google and IBM team up to bring health information management to your handheld; and then we have a brief chat about whether web concepts should necessarily mirror their pre-web avataars.
Show notes
Remote synchrotron operation
Hari’s post on code-itch
Google takes your pulse
Webcentric software - telegraphs and telephones ( a post by Rich Apodaca )
Links of the week
NextBio
Breaking eggs and making omelets a blog on multimedia and ffmpeg
Coast to Coast Bio podcast #12:
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