Useful Web Resources

Online Links for Publications and Literature Search Engines

 

Entrez PubMed www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed

NLM’s search service to citations in MEDLINE, with links to online journals and other related databases, NIH

PubCrawler Web Service pubcrawler.gen.tcd.ie/

Free “alerting” service that scans daily updates to the NCBI, Medline and GenBank databases.

Public Library of Science www.plos.org

Effort to make the world’s scientific and medical literature freely accessible to scientists and to the public around the world.

San Diego Supercomputer Center: Delivering Cyberinfrastructure www.sdsc.edu

Excellent compendium of tools and resources for molecular biology and proteomics, University of California San Diego.

Cell and Molecular Biology Online www.cellbio.com

Informational resources for cellular and molecular biology.

TIGEM Telethon Institute of Genetics and Medicine www.tigem.it

Links to resources for expressed sequence tags analysis, University of Brescia.

 

Genome Databases

 

TIGR Human Gene Index compbio.dfci.harvard.edu/tgi/

TIGR human gene index.

Mitomap www.mitomap.org

Human mitochondrial genome, Emory University.

MGI 3.3 – Mouse Genome Informatics www.informatics.jax.org

The mouse genome, Jackson Laboratory.

Berkeley Drosophila Genome Project www.fruitfly.org

Drosophila genome project, Berkeley.

The Sanger Institute: C. elegans Project www.sanger.ac.uk/Projects/C_elegans

  1. elegansgenome, Sanger Center.

Saccharomyces Genome Database www.yeastgenome.org

  1. cerevisiaegenome, Stanford.

 

Signal Transduction Research

 

Scansite scansite.mit.edu

Scansite predicts phosphorylation sites and specific domain-binding regions within proteins, MIT.

NetPhos 2.0 Server www.cbs.dtu.dk/services/NetPhos

Neural network predictions of phosphorylation sites in eukaryotic proteins, Technical University of Denmark.

Kinase.com www.kinase.com

Analyses of protein kinases from human, yeast, worm and fly.

AAAS | Science’s STKE stke.sciencemag.org

Signal transduction knowledge environment: resources and information on signal transduction, Science Magazine and Stanford University. Requires Subscription.

BIND – The Biomolecular Interaction Network bond.unleashedinformatics.com

Biomolecular Interaction Network Database serves full descriptions of interactions of proteins, nucleic acids and small molecules.

BioCarta – Charting Pathways of Life www.biocarta.com/search/index.asp

“Open source” resource providing online maps depicting selected signaling pathways.

Cell Cycle Regulated Yeast Genes genome-www.stanford.edu/cellcycle

Identification of yeast genes whose mRNA levels are regulated by the cell cycle, Stanford.

Horst Ibelgaufts’ COPE: Cytokines & Cells Online Pathfinder Encyclopediawww.copewithcytokines.org

Cytokines & Cells Encyclopedia, University of Munich.

GPCRDB: Information system for G protein-coupled receptors (GPCRs)www.gpcr.org/7tm

Information system for G protein-coupled receptors.

NetOGlyc 3.1 Server www.cbs.dtu.dk/services/NetOGlyc

Predictions of GalNAc O-glycosylation sites in mammalian proteins, Technical University of Denmark.

SenseLab senselab.med.yale.edu

Collaborative effort to build integrated, multidisciplinary models of neurons and neural systems, Yale University.

Bioinformatics & Biological Computing bip.weizmann.ac.il

Extensive annotations of ‘hot molecules’ that may play crucial roles in common diseases, Weizmann Institute.

 

Disease and Mutation Database

 

KinMutBase bioinf.uta.fi/KinMutBase

Database of disease-causing mutations in tyrosine kinase domains, links to other mutation databases, University of Tampere.

Atlas Chromosomes in Cancer atlasgeneticsoncology.org

Atlas of Genetics and Cytogenetics in Oncology and Haematology, dedicated to biological and molecular aspects of cancer and cancer-prone diseases.

OMIM – Online Mendelian Inheritance in Man www.ncbi.nlm.nih.gov/sites/entrez?db=OMIM

Online Mendelian Inheritance in Man: catalog of human genes and genetic disorders, NIH

The Human Gene Mutation Database (HGMD) www.hgmd.cf.ac.uk/ac/index.php

Human Gene Mutation Database, Institute of Medical Genetics, Cardiff.

OMIM Locus-specific mutation database linkswww.ncbi.nlm.nih.gov/Omim/allresources.html#LocusSpecific

Links to a number of locus specific mutation databases, NIH

Disease Genes www.ncbi.nlm.nih.gov/disease/

Positionally cloned human disease genes, NIH

CGAP Collaboration www.ncbi.nlm.nih.gov/ncicgap

Cancer Genome Anatomy Project: database of the genes responsible for cancer, NIH

 

Knockout and Transgenic Mice

 

JAX Mice Database jaxmice.jax.org/query/

Source of mouse strains with transgenes, or with targeted or chemically-induced mutations, The Jackson Laboratory.