Abstract:
BACKGROUND:Several biological techniques result in the acquisition of functional sets of cDNAs that must be sequenced and analyzed. The emergence of redundant databases such as UniGene and centralized annotation engines such as Entrez Gene has allowed the development of software that can analyze a great number of sequences in a matter of seconds. RESULTS:We have developed "EST Express", a suite of analytical tools that identify and annotate ESTs originating from specific mRNA populations. The software consists of a user-friendly GUI powered by PHP and MySQL that allows for online collaboration between researchers and continuity with UniGene, Entrez Gene and RefSeq. Two key features of the software include a novel, simplified Entrez Gene parser and tools to manage cDNA library sequencing projects. We have tested the software on a large data set (2,016 samples) produced by subtractive hybridization. CONCLUSION:EST Express is an open-source, cross-platform web server application that imports sequences from cDNA libraries, such as those generated through subtractive hybridization or yeast two-hybrid screens. It then provides several layers of annotation based on Entrez Gene and RefSeq to allow the user to highlight useful genes and manage cDNA library projects.
journal_name
BMC Bioinformaticsjournal_title
BMC bioinformaticsauthors
Smith RP,Buchser WJ,Lemmon MB,Pardinas JR,Bixby JL,Lemmon VPdoi
10.1186/1471-2105-9-186subject
Has Abstractpub_date
2008-04-10 00:00:00pages
186issn
1471-2105pii
1471-2105-9-186journal_volume
9pub_type
杂志文章abstract:BACKGROUND:It is useful to develop a tool that would effectively describe protein mutation matrices specifically geared towards the identification of mutations that produce either wanted or unwanted effects, such as an increase or decrease in affinity, or a predisposition towards misfolding. Here, we describe a tool wh...
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pub_type: 杂志文章
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更新日期:2014-12-30 00:00:00
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pub_type: 杂志文章
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更新日期:2014-10-18 00:00:00
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pub_type: 杂志文章
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