Can transcriptome size be estimated from SAGE catalogs? | Zendy

Michael D. Stern | Zendy; S. V. Anisimov | Zendy; Kenneth R. Boheler | Zendy

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Can transcriptome size be estimated from SAGE catalogs?

Author(s) -

Michael D. Stern,

S. V. Anisimov,

Kenneth R. Boheler

Publication year - 2003

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btg018

Subject(s) - estimator , sage , monte carlo method , computer science , expression (computer science) , sample size determination , statistics , serial analysis of gene expression , sampling (signal processing) , software , a priori and a posteriori , transcriptome , data mining , biology , mathematics , genetics , filter (signal processing) , gene expression , gene , physics , philosophy , epistemology , nuclear physics , computer vision , programming language

SAGE (Serial Analysis of Gene Expression) can be used to estimate the number of unique transcripts in a transcriptome. A simple estimator that corrects for sequencing and sampling errors was applied to a SAGE library (137 832 tags) obtained from mouse embryonic stem cells, and also to Monte Carlo simulated libraries generated using assumed distributions of 'true' expression levels consistent with the data.

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