TIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets.

Bioinformatics (Oxford, England) ·Vol. 19 ·No. 5 ·2003-03-22 ·Pages 651-2

Pertea G, Huang X, Liang F, Antonescu V, Sultana R, Karamycheva S, Lee Y, White J, Cheung F, Parvizi B, Tsai J, Quackenbush J

Abstract

TGICL is a pipeline for analysis of large Expressed Sequence Tags (EST) and mRNA databases in which the sequences are first clustered based on pairwise sequence similarity, and then assembled by individual clusters (optionally with quality values) to produce longer, more complete consensus sequences. The system can run on multi-CPU architectures including SMP and PVM.

MeSH Terms

Cluster Analysis Database Management Systems Databases, Nucleic Acid Expressed Sequence Tags Gene Expression Profiling/methods Gene Expression Regulation/genetics Information Storage and Retrieval/methods Sequence Alignment/methods Sequence Analysis, DNA/methods Sequence Homology Software

Authors & Affiliations

12 authors, click to expand affiliations / ORCID

Pertea Geo

The Institute for Genomic Research, Rockville, MD 20850, USA.

Huang Xiaoqiu

Liang Feng

Antonescu Valentin

Sultana Razvan

Karamycheva Svetlana

Lee Yuandan

White Joseph

Cheung Foo

Parvizi Babak

Tsai Jennifer

Quackenbush John

Article Info

Journal

Bioinformatics (Oxford, England)

Abbr.

Bioinformatics

ISSN

1367-4803

DOI

10.1093/bioinformatics/btg034

Published

2003-03-22

Pages

651-2

Language

English

Region

England

NLM ID

9808944

Subset

External Links

PubMed source DOI: 10.1093/bioinformatics/btg034 View journal details

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