A large tomato expressed sequence tag (EST) dataset (152 635 total) was analyzed to gain insights into differential gene expression among diverse plant tissues representing a range of developmental programs and biological responses. These ESTs were clustered and assembled to a total of 31 012 unique gene sequences. To better understand tomato gene expression at a plant system level and to ident...

NEMBASE (available at http://www.nematodes.org) is a publicly available online database providing access to the sequence and associated meta-data currently being generated as part of the Edinburgh-Wellcome Trust Sanger Institute parasitic nematode EST project. NEMBASE currently holds approximately 100 000 sequences from 10 different species of nematode. To facilitate ease of use, sequences have...

Data management for a public health study of unexplained diarrhea in children in Washington state. Microarray analysis of gene expression in various types of cancer. Management of DNA sequences generated in a company sequencing facility. Data management across multiple, related gene discovery projects. Assembly and analysis of entire genome sequence of a prokaryote. Data management for corporat...

To perform whole genome scanning for complex trait analysis, we isolated and characterized a total of 21 novel genomic-SSRs and EST-SSRs for yellow perch (Perca flavescens), using the methods of construction of SSR-enrichment libraries and EST database mining of a related species P. fluviatilis. Of 16 genomic-SSR primer pairs examined, eight successfully amplified scorable products. The number ...

Bellerophon is a set of Perl modules and application scripts that aims to improve the quality of EST clusters. Graph theory algorithms are applied to pairwise alignments to pinpoint putative chimeric ESTs, that is cutvertices of the alignement graph; theses putative chimeras are then studied individually at the sequence level to find evidences of their chimeric origin: restriction sites, polyA,...

Large-scale single-pass sequencing of cDNAs prepared from specific plant species or tissues has evolved as an inexpensive and efficient gene-discovery tool that can be used to identify novel cDNAs encoding enzymes of specific plant metabolic pathways. Collections of expressed sequence tags from metabolically active tissues can provide quantitative estimates of gene expression levels and thus ar...

The development of expressed sequence tags (ESTs) has provided a useful source for the mining of simple sequence repeat (SSR) markers. The hyacinth bean (Lablab purpureus L.) is one of the most ancient and important legume crops in the world, and is widely distributed in tropical and sub-tropical regions, but currently only limited molecular markers are available. The aim of the present study i...