Entrez Bioinformatics Databases and Tools : Molecular Databases
This library guide is designed by Lyra Eugenio-Thomson to assist in the use of bioinformatics databases and tools from Entrez, a retrieval system of the National Center for Biotechnology Information (NCBI).
Nucleotide Sequences
- dbSNP (Single Nucleotide Polymorphism)Serves as a central repository for both single base nucleotide substitutions and short deletion and insertion polymorphisms.
FAQ - ProbePublic registry of nucleic acid reagents designed for use in a wide variety of biomedical research applications.
QUERY TIPS - PopSet (Evolutionary Relatedness)Collection of DNA sequences used to analyze evolutionary relatedness within a population.
Structures
- Conserved DomainsContains protein domains from the Entrez Structure Database.
HELP - PubChem BioAssayContains bioactivity screens of chemical substances described in PubChem Substance.
PubChem Homepage
HELP - PubChem CompoundContains validated chemical depiction information provided to describe substances in PubChem Substance.
PubChem HELP
PubChem FAQ - PubChem SubstanceContains descriptions of chemical samples, from a variety of sources, and links to PubMed citations, protein 3D structures, and biological screening results that are available in PubChem BioAssay.
PubChem HELP
Protein Sequences
- ProteinsContains sequence data from the translated coding regions from DNA sequences (GenBank, EMBL, and DDBJ) and protein sequences submitted to Protein Information Resource (PIR), SWISS-PROT, Protein Research Foundation (PRF), and Protein Data Bank (PDB).
- CDD (Conserved Domain Database)Database of protein domains.
- Protein ClustersCollection of related protein sequences.
Genes
- GeneSearchable database of genes, from RefSeq genomes, and defined by sequence and/or located in the NCBI Map Viewer.
- UniGeneExperimental system for automatically partitioning GenBank sequences into a non-redundant set of gene-oriented clusters.
FAQ
QUERY TIPS - HomoloGeneAutomated system for detecting homologs among annotated genes of several completely sequenced eukaryotic genomes.
QUERY TIPS
BUILD PROCEDURE
Gene Expression
- Entrez GEO ProfilesQueries annotation & pre-computed profile characteristics, identification of specific genes, & molecular abundance profiles of interest.
FAQ - Entrez GEO DataSetsQueries all GEO DataSet annotation, allowing identification of experiments of interest.
FAQ - GENSATGene expression atlas of mouse central nervous system.