Coast to Coast Bio Podcast

There were some technical difficulties with the recording, so we apologies for some of the quality issues

Our weekly chat this week tries to explore web services like Embrace a little more and then goes into the Nature Precedings article on Instaseq, the Google powered bioinformatics search engine.  We talk about the excitement we feel to see that Matt Wood the head of production software at the Sanger Institute is blogging for the O’Reilly Radar, discuss cheminformatics, Git and Github, and finally end with the Ten Commandments of protein folding courtesy of Bosco (we do not apologize for being structure geeks). And here are the shownotes

• Uniprot architechture
• Instaseq: a Google powered Bioinformatics search
• Embrace and other service registries
• Matt Wood’s blogging on the O’Reilly Radar
• From SVN to Git/Github
• Boscos Ten commandments of protein folding

Standard Podcast [ 32:50 ] Play Now | Play in Popup | Download

We talk about a few submissions at The Elsevier grand challenge , after which we launch into a brief discussion of the Embrace registry for bioinformatics web services (at some point we need to talk about the greater Embrace project) . Along the same vein we discuss a cool new use of annotation to teach undergraduates bioinformatics principles and finally cover Sproutcore, a javascript frame work that could make rich internet apps even richer.

The Elsevier grand challenge: What researchers are promising to build using data APIs made available by Elsevier. Specifically talk about Rod Pages effort

Plos Biology : Metagenome annotation using a distributed grid of undegraduate students

The Embrace registry: a collection of life-science web services with built-in service testing. We also touch upon the Embrace Grid, which we will need to revisit some day.

Sproutcore and Cappuccino: Taking Javascript libraries to the next level

Coast to Coast Bio podcast #5 Play Now | Play in Popup | Download

After a week long hiatus prompted by failing hotel internet connections and sleep deprivation following a two-day synchrotron run , we return with an episode filled with discussion ranging from specialized hardware solutions for millisecond scale molecular dynamics simulations to collaborative personal genomics and  astronomical galaxy calling

Here are the shownotes:

First cut (video) of Deepaks talk on big data and open science at  Virginia Tech ( abstract)

D.E Shaw research group and map-reduce for molecular dynamics

NCI Cancer Molecular Analysis Portal and the BigHealth Consortium

Galaxy zoo : a collaborative galazy annotation project has its first publications

Whats new in Mathematica 6 (and 7)

Coast to Coast Bio podcast #4 Play Now | Play in Popup | Download