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ECgene: An alternative splicing database update

Title
ECgene: An alternative splicing database update
Authors
Lee Y.Kim B.Shin Y.Nam S.Kim P.Kim N.Chung W.-H.Kim J.Lee S.
Ewha Authors
이상혁김재상
SCOPUS Author ID
이상혁scopus; 김재상scopus
Issue Date
2007
Journal Title
Nucleic Acids Research
ISSN
0305-1048JCR Link
Citation
vol. 35, no. SUPPL. 1, pp. D99 - D103
Indexed
SCI; SCIE; SCOPUS WOS scopus
Abstract
ECgene (http://genome.ewha.ac.kr/ECgene) was developed to provide functional annotation for alternatively spliced genes. The applications encompass the genome-based transcript modeling for alternative splicing (AS), domain analysis with Gene Ontology (GO) annotation and expression analysis based on the EST and SAGE data. We have expanded the ECgene's AS modeling and EST clustering to nine organisms for which sufficient EST data are available in the GenBank. As for the human genome, we have also introduced several new applications to analyze differential expression. ECprofiler is an ontology-based candidate gene search system that allows users to select an arbitrary combination of gene expression pattern and GO functional categories. DEGEST is a database of differentially expressed genes and isoforms based on the EST information. Importantly, gene expression is analyzed at three distinctive levels - gene, isoform and exon levels. The user interfaces for functional and expression analyses have been substantially improved. ASviewer is a dedicated java application that visualizes the transcript structure and functional features of alternatively spliced variants. The SAGE part of the expression module provides many additional features including SNP, differential expression and alternative tag positions. © 2007 Oxford University Press.
DOI
10.1093/nar/gkl992
Appears in Collections:
자연과학대학 > 생명과학전공 > Journal papers
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