Biodegradation Sensor database

http://wwwmgs.bionet.nsc.ru/mgs/dbases/gensensor/index.html

PDB crossed more than 50,000 structures

With this week's update, the PDB archive reached a significant milestone in its 37-year history: The holdings now contain more than 50,000 current experimental structures.

http://www.rcsb.org/pdb/home/home.do

Genome Sequenced

The genome sequence completed and ongoing sequencing organism are reported in this website.
http://www.genomesonline.org/

Open Source Initiative

This is about the open source project http://opensource.org/about

Protein-Protein docking server

This is a useful site for protein-protein docking ZDOCK server http://zdock.bu.edu/

UCSF Chimera

Hi,

This is very useful tool for graphical visualization. Taking pictures using chimera is the best. Even compared to commercially available molecular modeling softwares. check it out this http://www.cgl.ucsf.edu/chimera/

Online Phylogenetic tree

This is good site for phylogenetic tree http://atgc.lirmm.fr/phyml/

India Takes an Open Source Approach to Drug Discovery

Open source software may have been around for 17 years, but using an open source model to speed up drug discovery is a relatively new idea. This month, India is launching a new open source initiative for developing drugs to treat diseases such as tuberculosis, malaria, and HIV.
Volume 133, Issue 2, 18 April 2008, Pages 201-203 , Cell

Getting Started in Text Mining

This is nice introductory article for text mining tools in Plos computational biology
http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.0040020

Good English dictionary site

www.onelook.com is a combination of more than 20 different dictionaries.

Indian journals push for clinical-trial registration

Eleven of India's leading medical journals will now consider publishing the results of clinical trials only if the trial in question has been registered with the Indian Council of Medical Research (ICMR) in New Delhi or any primary clinical-trial register.

The move follows the 2005 decision by the International Committee of Medical Journal Editors to publish only the results of registered trials. According to Kanikaram Satyanarayana, deputy chief of the ICMR, the delay was partly due to reluctance by the journal editors and pressure from industry. In addition, the ICMR had hoped that a bill it drafted in 2006 to regulate human trials would become law.

Trials that start in or after June of this year must be registered before enrolling their first participant; those beginning before this must register retrospectively. The ICMR says mandatory registration will ensure transparency and honesty, and discourage unethical trials.

An estimated 250 drug trials are under way in India, with applications for 30 more received on average each month.

http://www.nature.com/news/2008/080416/full/452797a.html

MPlayer - The Movie Player

The fantastic movie player http://www.mplayerhq.hu/design7/news.html

Online file format conversion

This is very useful site for file format conversion like rm to mp3 files or like doc to pdf online.

http://www.zamzar.com/

Online bookmarking site

This is very useful online bookmarking site http://del.icio.us/

List of published biological databases

Here is the list of published databases and web link available http://www3.oup.co.uk/nar/database/a/.
Useful one.

Protein-Protein Interaction through text mining tool

Check it out this site http://www.ihop-net.org/UniPub/iHOP/

Biodegradation Server(BPD server)

Interesting article in Biodegradation

The environmental fate of organic pollutants through the global microbial metabolism

The production of new chemicals for industrial or therapeutic applications exceeds our ability to generate experimental data on their biological fate once they are released into the environment. Typically, mixtures of organic pollutants are freed into a variety of sites inhabited by diverse microorganisms, which structure complex multispecies metabolic networks. A machine learning approach has been instrumental to expose a correlation between the frequency of 149 atomic triads (chemotopes) common in organo-chemical compounds and the global capacity of microorganisms to metabolise them. Depending on the type of environmental fate defined, the system can correctly predict the biodegradative outcome for 73–87% of compounds. This system is available to the community as a web server (http://www.pdg.cnb.uam.es/BDPSERVER). The application of this predictive tool to chemical species released into the environment provides an early instrument for tentatively classifying the compounds as biodegradable or recalcitrant. Automated surveys of lists of industrial chemicals currently employed in large quantities revealed that herbicides are the group of functional molecules more difficult to recycle into the biosphere through the inclusive microbial metabolism.

Molecular dynamics paper in science

Mechanism of Na+/H+ antiporting.
Arkin IT, Xu H, Jensen MØ, Arbely E, Bennett ER, Bowers KJ, Chow E, Dror RO, Eastwood MP, Flitman-Tene R, Gregersen BA, Klepeis JL, Kolossváry I, Shan Y, Shaw DE.
D. E. Shaw Research, New York, NY 10036, USA.
Science. 2007 Aug 10;317(5839):799-803.

Na+/H+ antiporters are central to cellular salt and pH homeostasis. The structure of Escherichia coli NhaA was recently determined, but its mechanisms of transport and pH regulation remain elusive. We performed molecular dynamics simulations of NhaA that, with existing experimental data, enabled us to propose an atomically detailed model of antiporter function. Three conserved aspartates are key to our proposed mechanism: Asp164 (D164) is the Na+-binding site, D163 controls the alternating accessibility of this binding site to the cytoplasm or periplasm, and D133 is crucial for pH regulation. Consistent with experimental stoichiometry, two protons are required to transport a single Na+ ion: D163 protonates to reveal the Na+-binding site to the periplasm, and subsequent protonation of D164 releases Na+. Additional mutagenesis experiments further validated the model.

Secrets of Greatness

What it takes to be great

Research now shows that the lack of natural talent is irrelevant to great success. The secret? Painful and demanding practice and hard work

By Geoffrey Colvin, senior editor-at-large

http://money.cnn.com/magazines/fortune/fortune_archive/2006/10/30/8391794/index.htm

My homology workstation

Progress toward Public Access to Science

The National Institutes of Health (NIH) is about to cross an important threshold. Starting April 7th, the authors of research reports that describe work supported by the NIH will be required to deposit accepted manuscripts into PubMed Central (PMC), the NIH's public digital library of full-text articles, with the understanding that the articles will be freely available for all to view no later than 12 months after publication.

http://biology.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pbio.0060101&ct=1

My heaven

Lotus temple in Delhi

Near Bharathiar university

Notes to a young computational biologist

This is a very good article "Notes to a young computational biologist" http://boscoh.com/protein/notes-to-a-young-computational-biologist

Want to be a UN Volunteer Online?

If you want to be an United Nation online volunteer ship you can visit this website and there number of success stories http://www.unv.org/how-to-volunteer.html

Steps to reach my goal

I have to cross these many steps to achieve my goal. Its like unsequenced genome.......................

New flower in our garden

Learn how everything works

This is good site how stuffs works - Learn how everything works

http://www.howstuffworks.com/

computer help

This is really a good site for computer help. Go through this it is very interesting
http://www.computerhope.com/