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» Computation in Gene Networks
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RECOMB
2006
Springer
16 years 7 months ago
Identifiability Issues in Phylogeny-Based Detection of Horizontal Gene Transfer
Prokaryotic organisms share genetic material across species boundaries by means of a process known as horizontal gene transfer (HGT). Detecting this process bears great significanc...
Cuong Than, Derek A. Ruths, Hideki Innan, Luay Nak...
BMCBI
2005
80views more  BMCBI 2005»
15 years 7 months ago
Gene finding in the chicken genome
Background: Despite the continuous production of genome sequence for a number of organisms, reliable, comprehensive, and cost effective gene prediction remains problematic. This i...
Eduardo Eyras, Alexandre Reymond, Robert Castelo, ...
RECOMB
2003
Springer
16 years 7 months ago
Phylogenetically and spatially conserved word pairs associated with gene expression changes in yeasts
Background: Transcriptional regulation in eukaryotes often involves multiple transcription factors binding to the same transcription control region, and to understand the regulato...
Derek Y. Chiang, Alan M. Moses, Manolis Kamvysseli...
RECOMB
2002
Springer
16 years 7 months ago
A new approach to analyzing gene expression time series data
We present algorithms for time-series gene expression analysis that permit the principled estimation of unobserved timepoints, clustering, and dataset alignment. Each expression p...
Ziv Bar-Joseph, Georg Gerber, David K. Gifford, To...
RECOMB
2010
Springer
16 years 2 months ago
Dense Subgraphs with Restrictions and Applications to Gene Annotation Graphs
Abstract. In this paper, we focus on finding complex annotation patterns representing novel and interesting hypotheses from gene annotation data. We define a generalization of th...
Barna Saha, Allison Hoch, Samir Khuller, Louiqa Ra...