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» Statistical significance in biological sequence analysis
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BMCBI
2008
111views more  BMCBI 2008»
13 years 7 months ago
Probabilistic base calling of Solexa sequencing data
Background: Solexa/Illumina short-read ultra-high throughput DNA sequencing technology produces millions of short tags (up to 36 bases) by parallel sequencing-by-synthesis of DNA ...
Jacques Rougemont, Arnaud Amzallag, Christian Isel...
BMCBI
2011
12 years 11 months ago
Gene set analysis for longitudinal gene expression data
Background: Gene set analysis (GSA) has become a successful tool to interpret gene expression profiles in terms of biological functions, molecular pathways, or genomic locations. ...
Ke Zhang, Haiyan Wang, Arne C. Bathke, Solomon W. ...
BMCBI
2011
12 years 11 months ago
A Novel And Well-Defined Benchmarking Method For Second Generation Read Mapping
Background: Second generation sequencing technologies yield DNA sequence data at ultra high-throughput. Common to most biological applications is a mapping of the reads to an almo...
Manuel Holtgrewe, Anne-Katrin Emde, David Weese, K...
BMCBI
2007
148views more  BMCBI 2007»
13 years 7 months ago
Blast sampling for structural and functional analyses
Background: The post-genomic era is characterised by a torrent of biological information flooding the public databases. As a direct consequence, similarity searches starting with ...
Anne Friedrich, Raymond Ripp, Nicolas Garnier, Emm...
BMCBI
2007
147views more  BMCBI 2007»
13 years 7 months ago
Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining
Background: Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Althoug...
Xochitl C. Morgan, Shulin Ni, Daniel P. Miranker, ...