Nucleic Acids Research, 2000, Vol. 28, No. 1 141-145
© 2000 Oxford University Press
The TIGR Gene Indices: reconstruction and representation of expressed gene sequences
The Institute for Genomic Research, Rockville, MD 20850, USA
Expressed sequence tags (ESTs) have provided a first glimpse of the collection of transcribed sequences in a variety of organisms. However, a careful analysis of this sequence data can provide significant additional functional, structural and evolutionary information. Our analysis of the public EST sequences, available through the TIGR Gene Indices (TGI; http://www.tigr.org/tdb/tdb.html ), is an attempt to identify the genes represented by that data and to provide additional information regarding those genes. Gene Indices are constructed for selected organisms by first clustering, then assembling EST and annotated 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 mapping and genomic sequence data, and to provide links between orthologous and paralogous genes.
* To whom correspondence should be addressed. Tel: +1 301 838 3528; Fax: +1 301 838 0208; Email: johnq@tigr.org
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