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BMCBI
2005
162views more  BMCBI 2005»
13 years 11 months ago
Accelerated probabilistic inference of RNA structure evolution
Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...
Ian Holmes
BMCBI
2005
190views more  BMCBI 2005»
13 years 11 months ago
Species-specific analysis of protein sequence motifs using mutual information
Background: Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles de...
Jan Hummel, Nima Keshvari, Wolfram Weckwerth, Joac...
BMCBI
2005
94views more  BMCBI 2005»
13 years 11 months ago
Measuring similarities between transcription factor binding sites
Background: Collections of transcription factor binding profiles (Transfac, Jaspar) are essential to identify regulatory elements in DNA sequences. Subsets of highly similar profi...
Szymon M. Kielbasa, Didier Gonze, Hanspeter Herzel
BMCBI
2005
212views more  BMCBI 2005»
13 years 11 months ago
PAGE: Parametric Analysis of Gene Set Enrichment
Background: Gene set enrichment analysis (GSEA) is a microarray data analysis method that uses predefined gene sets and ranks of genes to identify significant biological changes i...
Seon-Young Kim, David J. Volsky
BMCBI
2005
84views more  BMCBI 2005»
13 years 11 months ago
A note on generalized Genome Scan Meta-Analysis statistics
Background: Wise et al. introduced a rank-based statistical technique for meta-analysis of genome scans, the Genome Scan Meta-Analysis (GSMA) method. Levinson et al. recently desc...
James A. Koziol, Anne C. Feng