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» Methods for Predicting Target Sites of Transcription Factors
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BMCBI
2005
97views more  BMCBI 2005»
13 years 7 months ago
Phylogenetic reconstruction of ancestral character states for gene expression and mRNA splicing data
Background: As genomes evolve after speciation, gene content, coding sequence, gene expression, and splicing all diverge with time from ancestors with close relatives. A minimum e...
Roald Rossnes, Ingvar Eidhammer, David A. Liberles
COLT
2007
Springer
14 years 1 months ago
Learning Permutations with Exponential Weights
We give an algorithm for the on-line learning of permutations. The algorithm maintains its uncertainty about the target permutation as a doubly stochastic weight matrix, and makes...
David P. Helmbold, Manfred K. Warmuth
BMCBI
2008
128views more  BMCBI 2008»
13 years 7 months ago
Meta-analysis of breast cancer microarray studies in conjunction with conserved cis-elements suggest patterns for coordinate reg
Background: Gene expression measurements from breast cancer (BrCa) tumors are established clinical predictive tools to identify tumor subtypes, identify patients showing poor/good...
David D. Smith, Pål Sætrom, Ola R. Sn&...
RECOMB
2008
Springer
14 years 7 months ago
BayCis: A Bayesian Hierarchical HMM for Cis-Regulatory Module Decoding in Metazoan Genomes
The transcriptional regulatory sequences in metazoan genomes often consist of multiple cis-regulatory modules (CRMs). Each CRM contains locally enriched occurrences of binding site...
Tien-ho Lin, Pradipta Ray, Geir Kjetil Sandve, Sel...
BMCBI
2007
97views more  BMCBI 2007»
13 years 7 months ago
In situ analysis of cross-hybridisation on microarrays and the inference of expression correlation
Background: Microarray co-expression signatures are an important tool for studying gene function and relations between genes. In addition to genuine biological co-expression, corr...
Tineke Casneuf, Yves Van de Peer, Wolfgang Huber