The TIGR Plant Transcript Assemblies database
作者： K. L. Childs , J. P. Hamilton , W. Zhu , E. Ly , F. Cheung
DOI: 10.1093/NAR/GKL785
关键词:
摘要: The TIGR Plant Transcript Assemblies (TA) database (http://plantta.tigr.org) uses expressed sequences collected from the NCBI GenBank Nucleotide for construction of transcript assemblies. include sequence tags (ESTs) and full-length partial cDNAs, but exclude computationally predicted gene sequences. TA includes all plant species which more than 1000 EST or cDNA are publicly available. first clustered based on an all-versus-all pairwise comparison, followed by generation consensus (TAs) individual clusters. clustering assembly procedures use TGICL tool, Megablast CAP3 assembler. UniProt Reference Clusters (UniRef100) protein is used as reference functional annotation transcription orientation each determined alignment with best hit. available via web interfaces FTP downloads. can be retrieved a text-based keyword search sequence-based BLAST search. current version Release 2 (July 17, 2006) total 215 species.
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