Archive for the ‘Bioinformatics’ Category
Mapreduce and Hadoop Algorithms in Bioinformatics Papers
Purely inspired by Atbrox’s list of academic papers for Mapreduce & Hadoop Algorithms. Unlike computer science where applications of Mapreduce/Hadoop are very much diversified, most of published implementations in bioinformatics are still focused on the analysis and/or assembly of biological [...]
Lean Bioinformatics: Can I Get Satisfaction From Your Bioinformatics Software?
Generally most of Bioinformatics software and database applications are developed with single prospective in mind – “If you build it, they will come, even they don’t come a publication will come”. There are hardly any community inputs or feedbacks during the [...]
Bloom filters for bioinformatics
The Bloom filter was originally developed by Burton H. Bloom back in the seventies and for long time it was there without any major application. Google is credited for making Bloom filter popular again. Only after the Google used Bloom [...]
Breaking the storage bottleneck for accelerated biocomputing
There is an interesting commentary about accelerated biocomputing by Martin Gollery, founder of Tahoe Informatics. Article features the technological gap between processors and hard-disk drive technology. According to Martin, the speed of hard-disk drive technology has not improved at the [...]
Google BigQuery and Prediction APIs = Wishlist of a computational biologist
Recent Google IO was amazing, from a developer’s point of view I liked most of talks. But this particular talk about latest Google offering BigQuery and Prediction APIs is of particular interest for bioinformatics and computational biology community. While Google’s [...]
Interdisciplinary scientists: Identity and market crisis
This is a topic which has always eluded me, I wrote sometime back on the fine line of multidisciplinary versus interdisciplinary scientists. Recently this question was raised again by Michael Andrec at Linkedin computational biology forum. The question he raised [...]
Put some breathe life in your papers with clever visualization
I often screen papers for my reading list based on their illustration appeal. I know this may be bit strange for the people who judge the papers simply based on their abstracts or conclusion section. But trust me it works [...]
Availability decay of Bioinformatics web resources : Yes widgets can change it
Quality and availability of bioinformatics resources is always a matter of great debate. HTTP 404 not found is quite frequent phenomenon for bioinformatics researchers looking to use some published web accessible database or analysis tool. A 4-year follow-up survey on [...]
NodeXL for visualizing biological network data in Excel and some other serious Microsoft ventures in Bioinformatics
Lately Microsoft has released few interesting add-ins for their Office products. Yesterday I wrote about a Word add-in that enables the annotation of scientific documents using bio-ontologies and controlled vocabularies. Today I learned about their latest add-in for Excel, NodeXL, [...]
Bio-ontologies for everyone with new Microsoft Word Add-in
A latest paper in BMC Bioinformatics describes a Microsoft Word Add-in for ontology recognition. Tool is freely available from Codeplex portal and as prerequisite you will need Microsoft Word 2007. This add-in enables the annotation of scientific documents based on [...]
