Nucleic Acids Research, 2001, Vol. 29, No. 1 159-164
© 2001 Oxford University Press
The TIGR Gene Indices: analysis of gene transcript sequences in highly sampled eukaryotic species
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
While genome sequencing projects are advancing rapidly, EST sequencing and analysis remains a primary research tool for the identification and categorization of gene sequences in a wide variety of species and an important resource for annotation of genomic sequence. The TIGR Gene Indices (http://www.tigr.org/tdb/tgi.shtml) are a collection of species-specific databases that use a highly refined protocol to analyze EST sequences in an attempt to identify the genes represented by that data and to provide additional information regarding those genes. Gene Indices are constructed by first clustering, then assembling EST and annotated gene sequences from GenBank for the targeted species. 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 mapping and genomic sequence data, to provide links between orthologous and paralogous genes and as a resource for comparative sequence analysis.
* To whom correspondence should be addressed. Tel: +1 301 838 3528; +1 301 838 0208; Email: johnq{at}tigr.org Present address: Feng Liang, Life Technologies, Rockville, MD 20850, USA
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M. Rep, H. L. Dekker, J. H. Vossen, A. D. de Boer, P. M. Houterman, D. Speijer, J. W. Back, C. G. de Koster, and B. J.C. Cornelissen Mass Spectrometric Identification of Isoforms of PR Proteins in Xylem Sap of Fungus-Infected Tomato Plant Physiology, October 1, 2002; 130(2): 904 - 917. [Abstract] [Full Text] [PDF]
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L. Skrabanek and F. Campagne TissueInfo: high-throughput identification of tissue expression profiles and specificity Nucleic Acids Res., November 1, 2001; 29(21): e102 - e102. [Abstract] [Full Text] [PDF]
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