Woods: A fast and accurate functional annotator and classifier of genomic and metagenomic sequences

Time to analyse your data using woods "a functional annotator and classifier of genomic and metagenomic sequences"

A recent publication out from our lab. Please explore and write back to (ashok@iiserb.ac.in) in case of any problem. Comments are welcome. 

Available at: http://www.ncbi.nlm.nih.gov/pubmed/25863333

http://metagenomics.iiserb.ac.in/woods/index.php

Databases and tools for understanding the xenobiotics metabolism

Human physiology influenced by human microbiome in several ways, mainly via impact of human gut microbes on the metabolism of xenobiotic compounds. These interactions are quite important as they are very significant in order to improve overall efficacy of therapeutic compounds, but microbial metabolism of xenobiotics still remains unexplored. Here, I have provided the link of important databases and tools for biotransformation/degradation of xenobiotics. 

1. The Transformer database: biotransformation of xenobiotics

Available at: http://bioinformatics.charite.de/transformer/index.php?site=faq

http://nar.oxfordjournals.org/content/42/D1/D1113.full

2. UM-BBD -- University of Minnesota Biocatalysis/Biodegradation Database

Available at: http://www.hsls.pitt.edu/obrc/index.php?page=URL1100188151

http://www.ncbi.nlm.nih.gov/pubmed/19767608

http://www.microbialinformaticsj.com/content/2/1/1   

3. Eawag: Biocatalytic/Biodegradation database, to identify the metabolic enzyme for candidate drug

http://eawag-bbd.ethz.ch/predict/

4. Gut Pharmacomicrobiomics: the tip of an iceberg of complex interactions between drugs and gut-associated microbes

http://pharmacomicrobiomics.com/

http://www.gutpathogens.com/content/4/1/16

5. DrugBank 4.0: shedding new light on drug metabolism

http://www.drugbank.ca/

http://nar.oxfordjournals.org/content/early/2013/11/06/nar.gkt1068.full

Gut Pharmacomicrobiomics:

To study the influence of gut microbes on xenobiotics metabolism.

Pharmacomicrobiomics database:

The PharmacoMicrobiomics web portal is a part of an initiative to explore the interactions between human-associated microbes (human microbiome) and drugs by building a knowledgebase that allows interested students and investigators "to predict the behavior of untested members of drug classes or unstudied microbial species, and to design laboratory experiments for testing these predictions.

Available at: http://www.biomedcentral.com/1471-2105/12/S7/A10

http://pharmacomicrobiomics.com/