Encyclopedia of Genetics, Genomics, Proteomics and Informatics
Encyclopedia of Genetics, Genomics, Proteomics, and Bioinformatics
Life Sciences Library (Reference) 599.935 En19 2005
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Databases and other resources
- PubMed (Medline) – index to the bibliographic literature with links (LinkOut) to structures, compounds, sequences, etc. identified in the journal article. The following URL will activate
- NCBI (National Center for Biotechnology Information) - Established in 1988 as a national resource for molecular biology information, NCBI creates public databases, conducts research in computational biology, develops software tools for analyzing genome data, and disseminates biomedical information - all for the better understanding of molecular processes affecting human health and disease. Cross-database searching available at: http://www.ncbi.nlm.nih.gov/sites/gquery
- EBI (European Bioinformatics Institute) – Established to provide freely available data and bioinformatics services to all facets of the scientific community in ways that promote scientific progress; to contribute to the advancement of biology through basic investigator-driven research in bioinformatics; to provide advanced bioinformatics training to scientists at all levels, from PhD students to independent investigators; and, to help disseminate cutting-edge technologies to industry.
- PubChem - PubChem is organized as three linked databases within the NCBI's Entrez information retrieval system. These are PubChem Substance, PubChem Compound, and PubChem BioAssay. PubChem also provides a fast chemical structure similarity search tool.
- BIOSIS Previews - life sciences and biomedical research from journals, meetings, patents, and books. Start here for plant biology or plant genetics and other non-clinical biology and genetics articles. Use the term “computational biology” in the major concepts field to narrow retrieval.
- Cold Spring Harbor Protocols - an interactive source of several hundred reliable, new and classic research techniques in molecular and cellular biology. A number of protocols demonstrate successful search strategies for the NCBI tools (i.e., BLAST, FASTA, etc.)
- Current Protocols Series - contains the largest collection of authoritative, peer-reviewed, regularly-updated research methods and topical overviews available. A number of the protocols demonstrate successful use of the various NCBI and other bioinformatic tools.
- Biobase Knowledge Library - combination of computational and experimental data for drug discovery, biomarker discovery, gene regulation analysis and more.
Tutorials and Help
- NCBI Entrez Help -- Entrez integrates the scientific literature, DNA and protein sequence databases, 3D protein structure and protein domain data, population study datasets, expression data, assemblies of complete genomes, and taxonomic information into a tightly interlinked system. It is a retrieval system designed for searching its linked databases.
- NCBI Entrez tutorial – Based on a journal article, this tutorial uses a human gene to demonstrate the variety of information that can be gathered for a single gene.
- Other NCBI tutorials, including materials from courses previously taught at NCBI.
- Bioinformatics Tutorials Series (BITS) - from MIT Engineering and Science Libraries and Harvard's Countway Library, a series of brief video tutorials on BLAST and UCSC Genome Browser.
- Bioinformatics Tools: Tips, Tutorials, and Terminology for Using Selected Resources in Genome Database Guide – These tutotials are targeted to first-time users of some of the bioinformatics resources described in Genome Database Guide.
- EBI 2Can Support – short and concise introductions to the basic concepts in molecular and cellular biology, bioinformatics, and the tools and databases available from EBI.
Portals and other institutional sites
- Bioresearch Portal – Stanford School of Medicine list of resources.
- The Comprehensive Microbial Resource (CMR) -- a free website used to display information on all of the publicly available, complete prokaryotic genomes.
- Ensembl Genome Browser -- a joint project between EMBL - EBI and the Sanger Institute to develop a software system which produces and maintains automatic annotation on selected eukaryotic genomes.
- ExPASy Proteomics server - (Expert Protein Analysis System) proteomics server of the Swiss Institute of Bioinformatics (SIB) is dedicated to the analysis of protein sequences and structures as well as 2-D PAGE. Includes the Life Science Directory of biomolecular servers.
- Internet Resources for Bioinformatics – University of Delaware Library list of resources.
- OBRC (Online Bioinformatics Resources Collection) – annotations and links for 2100+ databases and software tools developed at the University of Pittsburgh.
- RCSB Protein Data Bank -- Research Collaboratory for Structural Biology’s information portal to biological macromolecular structures.
- UCSC Genome Browser - reference sequence and working draft assemblies for a large collection of genomes.