PubMed
PubMed, a service of the National Library of Medicine, provides access to
over 12 million MEDLINE citations back to the mid-1960's and additional life science
journals. PubMed includes links to many sites providing full text articles and other
related resources.
PubMed Central
PubMed Central (PMC) is the U.S. National Library of Medicine's digital
archive of life sciences journal literature.
Access to the full text of articles
in PMC is free, except where a journal requires a subscription for access to recent
articles.
Site Search
Detailed NCBI web site and ftp search.
Books
In collaboration with authors and publishers, the National Center for
Biotechnology Information (NCBI) is adapting biomedical Books for the
web.
OMIM
Online Mendelian Inheritance in Man (OMIM) is a catalog of human genes
and genetic disorders, with links to literature references, sequence records, maps, and
related databases. It is based on the book, Mendelian Inheritance in Man. The online
version is updated daily. The OMIM FAQs provide additional information about the book
and the online database.
OMIA
Online Mendelian Inheritance in Animals (OMIA) is a database of genes,
inherited disorders and traits in animal species (other than human and mouse) authored
by Professor Frank Nicholas of the University of Sydney, Australia, with help from many
people over the years. The database contains textual information and references, as well
as links to other relevant records.
Nucleotide
The Nucleotide database contains records for all Entrez Nucleotide
sequences that are not found within the Expressed Sequence Tag (EST) or Genome Survey
Sequence (GSS) divisions of GenBank. These include sequences from all remaining
divisions of GenBank, NCBI Reference Sequences (RefSeqs), Whole Genome Shotgun (WGS)
sequences, Third Party Annotation (TPA) sequences, and sequences imported from the
Entrez Structure database.
EST
The EST database contains all records found within the Expressed Sequence
Tag (EST) division of GenBank. EST records contain first-pass single-read cDNA sequences
and include no annotated biological features.
GSS
The GSS database contains all records found within the Genome Survey
Sequence (GSS) division of GenBank. GSS records contain first-pass single-read genomic
sequences and rarely include annotated biological features.
Protein
The Protein entries in the Entrez search and retrieval system have been
compiled from a variety of sources, including SwissProt, PIR, PRF, PDB, and translations
from annotated coding regions in GenBank and RefSeq.
Epigenomics
Enables users to explore and visualize richly-annotated epigenomics datasets. It
provides a unique interface to search and navigate epigenomic data in the context of
biological sample information, as well as tools to select, download and view multiple
sets of epigenomic data as tracks on genome browsers.
Genome
The whole Genomes of over 1000 viruses and over 100 microbes can be found
in Entrez Genome. The genomes represent both completely sequenced organisms and those
for which sequencing is in progress. All three main domains of life - bacteria, archaea,
and eukaryota - are represented, as well as many viruses and organelles.
Structure
Structure: The Molecular Modeling Database (MMDB) contains 3-D
macromolecular structures, including proteins and polynucleotides. MMDB contains over
20,000 structures and is linked to the rest of the NCBI databases, including sequences,
bibliographic citations, taxonomic classifications, and sequence and structure
neighbors.
Taxonomy
The NCBI Taxonomy database contains the names of all organisms that are
represented in the genetic databases with at least one nucleotide or protein
sequence.
SNP
Database of short genetic variations, including, but not limited to, Single Nucleotide Polymorphisms.
dbVar
The dbVar database has been developed to archive information associated with
large scale genomic variation, including large insertions, deletions, translocations and
inversions. In addition to archiving variation discovery, dbVar also stores associations
of defined variants with phenotype information.
Gene
Gene organizes information about the characteristics and defining
sequences of genes from species in Genome, RefSeq, and other model
organisms.
SRA
SRA Raw sequence data from sequencing instruments.
BioSystems
BioSystems The BioSystems database contains records that group together
molecules that interact in biological systems. One type of biosystem is a biological
pathway, which can consist of interacting genes, proteins, and small molecules. Another
type of biosystem is a disease, which can involve components such as genes, biomarkers,
and drugs.
HomoloGene
HomoloGene is an automated system for detecting homologs among the
annotated genes of several completely sequenced eukaryotic genomes.
PubChem Compound
PubChem Compound contains chemical structure information drawn from a
variety of public sources. Compounds may be searched by chemical properties and are
pre-clustered into identity and similarity groups by structure comparison. Whenever
possible, compounds are linked via PubChem Substance to information on their
biological activities. Available links include PubMed citations, protein 3D structures
and links to biological screening results available in PubChem
BioAssay.
PubChem Substance
PubChem Substance contains descriptions of chemical samples, from a
variety of public sources, and links to information on their biological activities. The
description includes links to PubChem Compound in cases where the chemical
structures of compounds in the sample are known. Links providing information on
biological activity include links to PubMed citations, protein 3D structures, and to
biological screening results available in PubChem BioAssay.
dbGaP
The database of genotype and phenotype (dbGaP) stores phenotype and
genotype data, as well as the associations between them. Studies generating data for
dbGaP will include genome-wide association studies, medical sequencing, and molecular
diagnostic assays. Summaries of phenotype and genotype data as well as study documents
and association analyses (when available) will be found on the public site. Authorized
access may be required for downloading coded individual-level phenotypes genotypes and
pedigrees.
UniGene
UniGene is an experimental system for automatically partitioning GenBank
sequences into a non-redundant set of gene-oriented clusters. Each UniGene cluster
contains sequences that represent a unique gene, as well as related information such as
the tissue types in which the gene has been expressed and map location.
CDD
CDD currently contains domains derived from two popular collections,
Smart and Pfam, plus contributions from colleagues at NCBI, such as COG. The source
databases also provide descriptions and links to citations. Since conserved domains
correspond to compact structural units, CDs contain links to 3D-structure via Cn3D
whenever possible.
Clone
Clone is a database that integrates information about clones and
libraries, including sequence data, map positions and distributor information. It
replaces the former NCBI Clone Registry.
UniSTS
UniSTS is a NCBI resource that reports information about markers, or
Sequence Tagged Sites (STS). UniSTS integrates marker and mapping data from public
resources including GenBank, RHdb, GDB, various human maps (Genethon genetic map,
Marshfield genetic map, Whitehead RH map, Whitehead YAC map, Stanford RH map, NHGRI chr
7 physical map, WashU chrX physical map), various mouse maps (Whitehead RH map,
Whitehead YAC map, Jackson laboratory's MGD map).
PopSet
PopSet is a set of DNA sequences that have been collected to analyse the
evolutionary relatedness of a population. The population could originate from different
members of the same species, or from organisms from different species. They are
submitted to GenBank via Sequin, often as a sequence alignment.
GEO Profiles
Individual gene expression and molecular abundance profiles assembled from the
Gene Expression Omnibus (GEO) repository. Entrez GEO Profiles queries annotation
and pre-computed profile characteristics, allowing identification of specific genes, and
molecular abundance profiles of interest.
GEO DataSets
Comparable experimental sample sets assembled from the Gene Expression
Omnibus (GEO) repository. Entrez GDS queries all GEO DataSet annotation,
allowing identification of experiments of interest.
PubChem BioAssay
PubChem BioAssay contains the results of biological activity screening
from a variety of public sources. It provides searchable descriptions of each bioassay,
including descriptions of the conditions and readouts specific to that screening
procedure. PubChem BioAssay results are linked to PubChem Substance, and
in turn to PubChem Compound, whenever chemical structures are known. Screening
results may be browsed via a web interface and also downloaded for further
cheminformatics analysis.
Probe
The Probe Database is a public registry of sequence-specific reagents
designed for use in a wide variety of biomedical research applications, together with
information on reagent availability, experimental protocols, probe effectiveness, and
computed sequence similarities.
Protein Clusters
Protein Clusters is a collection of related protein sequences (clusters).
Currently it consists of Reference Sequence proteins encoded by complete prokaryotic and
chloroplast genomes and plasmids. This database contains both curated and non-curated
clusters.
NLM Catalog
The NLM Catalog provides access to the National Library of Medicine's
bibliographic data for journals, books, audiovisuals, computer software, electronic
resources, and other materials. Links to the Library's holdings in LocatorPlus, NLM's
online public access catalog, are also provided.
MeSH
MeSH is NLM's controlled vocabulary used for indexing articles in PubMed.
MeSH terminology provides a consistent way to retrieve information that may use
different terminology for the same concepts. Use the MeSH database to build a PubMed
search strategy.
BioProject
BioProject aggregates information about and links to data generated by a
single biological research project of an organization or consortium.
