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BMCBI
2010
183views more  BMCBI 2010»
13 years 8 months ago
SOPRA: Scaffolding algorithm for paired reads via statistical optimization
Background: High throughput sequencing (HTS) platforms produce gigabases of short read (<100 bp) data per run. While these short reads are adequate for resequencing application...
Adel Dayarian, Todd P. Michael, Anirvan M. Sengupt...
CSB
2003
IEEE
124views Bioinformatics» more  CSB 2003»
14 years 1 months ago
SMASHing regulatory sites in DNA by human
Regulatory sequence elements provide important clues to understanding and predicting gene expression. Although the binding sites for hundreds of transcription factors are known, t...
Mihaela Zavolan, Nicholas D. Socci, Nikolaus Rajew...
BMCBI
2008
323views more  BMCBI 2008»
13 years 8 months ago
A compatible exon-exon junction database for the identification of exon skipping events using tandem mass spectrum data
Background: Alternative splicing is an important gene regulation mechanism. It is estimated that about 74% of multi-exon human genes have alternative splicing. High throughput tan...
Fan Mo, Xu Hong, Feng Gao, Lin Du, Jun Wang, Gilbe...
BMCBI
2005
179views more  BMCBI 2005»
13 years 8 months ago
MARS: Microarray analysis, retrieval, and storage system
Background: Microarray analysis has become a widely used technique for the study of geneexpression patterns on a genomic scale. As more and more laboratories are adopting microarr...
Michael Maurer, Robert Molidor, Alexander Sturn, J...
BMCBI
2010
96views more  BMCBI 2010»
13 years 8 months ago
ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data
Background: Chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-seq) or ChIP followed by genome tiling array analysis (ChIP-chip) have become standar...
Lihua J. Zhu, Claude Gazin, Nathan D. Lawson, Herv...