Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile


General information

Full name: TIGR Gene Index database
Description: The TIGR Gene Index databases (TGI) ( are constructed using all publicly available expressed sequence tags (EST) and known gene sequence data stored in GenBank for each target species.
Year founded: 1998
Last update: 2005-06-01
Version: 1.0
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Country/Region: United States
Data type:
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Contact information

University/Institution: The Institute for Genomic Research
Address: 9712 Medical Center Drive, Rockville, MD 20850, USA
City: Rockville
Province/State: MD
Country/Region: United States
Contact name (PI/Team): Y. Lee
Contact email (PI/Helpdesk):


The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes. [PMID: 15608288]
Lee Y, Tsai J, Sunkara S, Karamycheva S, Pertea G, Sultana R, Antonescu V, Chan A, Cheung F, Quackenbush J.

Although the list of completed genome sequencing projects has expanded rapidly, sequencing and analysis of expressed sequence tags (ESTs) remain a primary tool for discovery of novel genes in many eukaryotes and a key element in genome annotation. The TIGR Gene Indices ( are a collection of 77 species-specific databases that use a highly refined protocol to analyze gene and EST sequences in an attempt to identify and characterize expressed transcripts and to present them on the Web in a user-friendly, consistent fashion. A Gene Index database is constructed for each selected organism by first clustering, then assembling EST and annotated cDNA and gene sequences from GenBank. This process produces a set of unique, high-fidelity virtual transcripts, or tentative consensus (TC) sequences. The TC sequences can be used to provide putative genes with functional annotation, to link the transcripts to genetic and physical maps, to provide links to orthologous and paralogous genes, and as a resource for comparative and functional genomic analysis.

Nucleic Acids Res. 2005:33(Database issue) | 108 Citations (from Europe PMC, 2021-06-19)


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1170/5061 (76.902%)
219/924 (76.407%)
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Created on: 2015-07-11
Curated by:
Lina Ma [2016-08-16]
Guangyu Wang [2016-04-01]
Guangyu Wang [2015-11-24]