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NCBI Databases

National Center for Biotechnology Information (NCBI) Databases

The National Center for Biotechnology Information (NCBI) at the National
Library of Medicine offers quite a few different databases, the best known
being PubMed.  This LibGuide spotlights some of the other databases
available for you to search.


BLAST - Basic Local Alignment Search Tool

BLAST (Basic Local Alignment Search Tool) finds regions of similarity between biological sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance.

Cn3D ("see in 3D")

Cn3D ("see in 3D") is a helper application for your web browser that allows you to view 3-dimensional structures from NCBI's Entrez Structure database. Cn3D is provided for Windows and Macintosh, and can be compiled on Unix. Cn3D simultaneously displays structure, sequence, and alignment.


dbSNP (Database of Short Genetic Variations) contains human single nucleotide variations, microsatellites, and small-scale insertions and deletions along with publication, population frequency, molecular consequence, and genomic and RefSeq mapping information for both common variations and clinical mutations.


Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.


This resource organizes information on genomes including sequences, maps, chromosomes, assemblies, and annotations.


MedGen is NCBI's portal to information about conditions and phenotypes related to Medical Genetics.  The search functionality is very similar to that in PubMed.


The Nucleotide database is a collection of sequences from several sources, including GenBank, RefSeq, TPA and PDB. Genome, gene and transcript sequence data provide the foundation for biomedical research and discovery.


The Protein database is a collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB. Protein sequences are the fundamental determinants of biological structure and function.


Quickly find chemical information from authoritative sources. PubChem is the world's largest collection of freely accessible chemical information. Search chemicals by name, molecular formula, structure, and other identifiers. Find chemical and physical properties, biological activities, safety and toxicity information, patents, literature citations and more.  As of December 2022, PubChem also includes NLM's Drug Information Portal data.