NCBI has created a large number of databases that are freely available to researchers. All these databases can be reached from the Entrez search page. Entrez Global Query allows cross searching of all the NCBI databases. Like Entrez, BLAST (Basic Local Alignment Search Tool) is not a database itself, but a means of accessing the data in NCBI protein and nucleotide databases.
Most frequently used NCBI databases are:
PubMed: Major bibliographic database from NCBI. It searches MEDLINE and also allows access to journals indexed by MEDLINE.
OMIM; Online Mendelian Inheritance in Man: A database from John Hopkins University for human genetics containing short articles on genetic disorders.
Nucleotide databases: A composite of data from GenBank, the EMBL and DNA Databank of Japan (DDBJ). Divided in 3 sub-databases:
GenBank Expressed sequence Tags (EST): Short sequence derived from mRNA isolated from a particular tissue at a particular stage of development.
GenBank Genome Survey Sequence (GSS): sequences derived from whole-genome sequencing projects
CoreNucleotide: All sequences that are not ESTs or GSSs
Protein database: contains data from Genbank, EMBL and DDBJ and sequences submitted to various other sources including SWISS-PROT.
Most frequently used NCBI databases are:
PubMed: Major bibliographic database from NCBI. It searches MEDLINE and also allows access to journals indexed by MEDLINE.
OMIM; Online Mendelian Inheritance in Man: A database from John Hopkins University for human genetics containing short articles on genetic disorders.
Nucleotide databases: A composite of data from GenBank, the EMBL and DNA Databank of Japan (DDBJ). Divided in 3 sub-databases:
GenBank Expressed sequence Tags (EST): Short sequence derived from mRNA isolated from a particular tissue at a particular stage of development.
GenBank Genome Survey Sequence (GSS): sequences derived from whole-genome sequencing projects
CoreNucleotide: All sequences that are not ESTs or GSSs
Protein database: contains data from Genbank, EMBL and DDBJ and sequences submitted to various other sources including SWISS-PROT.
Genome database: provides views of entire genomes and chromosomes. Results are displayed via NCBI's Map Viewer.
Structure database: contains three dimensional images of proteins from protein database. Protein images can be manipulated using the free CN3D tool.
Gene database: allows users to search for individual genes from among the genomes represented in RefSeq. Results may be examined in sequence viewer.
Taxonomy: contains names of all organisms that are represented by nucleotide or protein sequences in NCBI databases
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