Archive for the ‘Bioinformatics’ Category
What characterizes successful computational biologists?
A latest survey report in Nature Biotechnology highlights some of notable computational biology advances in year 2010. Featured computational biology breakthroughs falls broadly in four categories, Emergence of next-generation computational methods for Next-generation sequence analysis such as de novo transcriptome assembly of [...]
Growth of Bioinformatics Databases
Latest Nucleic Acids Research (NAR) Database issue is out now. NAR Database 2011 issue features 96 new online databases covering a variety of biological data types and it also includes update on 83 data resources that have previously been published [...]
Creating your own JSON Endpoints for Bio Web Services: Basics
Currently major biological databases use the SOAP/WSDL framework to provide the web-services where communication happens through exchange of XML bits. Now in most of programming language you have SOAP/WSDL clients such as SOAP4R and Savon in Ruby, SOAPy, ZSI, SUDS, and soaplib [...]
The missing library for the structural bioinformatics
Recently Hildebrandt et. al published an update on software BALL (Biochemical Algorithms Library ) in journal BMC bioinformatics (use this URL if DOI don’t resolve). BALL is a comprehensive, heavy-weight library for structural bioinformatics with primary focus on rapid and [...]
Delta downloads for big data in Bioinformatics
Most of public bioinformatics databases don’t offer delta downloads or incremental updates. They don’t offer because either scientists are not demanding or data base providers don’t see any value in this. This was not a big issues for long time [...]
Why it is best time to be Bioinformatician?
I am new fan of Quora, a community created, edited, and organized website which helps participants to aggregates questions and answers on their topic of interest. There are always some interesting debate for the participants and in fact there are [...]
Utopia Documents: Are PDFs Inevitable?
Utopia Documents is an enhanced PDF reader for scientific articles which enables reader to comment and explore article content inside the PDF document. Reader can interact with data referenced in articles, for instance playing with molecular structures, sequence alignment etc. It [...]
Immunoassay analysis with Eclipse RCP
Compass is an interesting bioinformatics application developed by Cell Biosciences which is built on top of Eclipse RCP. Compass is designed to perform immunoassay analysis and it allows researchers to setup, run and analyze immunoassay experiments. It can translates data into [...]
Platform for Systems Biology and Bioinformatics: NetBeans vs Eclipse
An unbiased list of systems biology, bioinformatics and chemoinformatics applications built on top of Netbeans pltform and Eclipse RCP. In all fairness, there is no clear winner. In fact with little variations both Eclipse and Netbeans can be used for [...]
The misuse of terms 'homology' in bioinformatics community
In a recent letter to the editor of journal Bioinformatics Marabotti and Facchiano have raised the concern over the misuse of term ‘homology’ in peer-reviwed bioinformatics papers. This issues is not new for the scientific community at all, in fact [...]
