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» Smoothing Gene Expression Using Biological Networks
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JBCB
2007
161views more  JBCB 2007»
13 years 7 months ago
On Cooperative Quasi-Equilibrium Models of transcriptional Regulation
Mechanistic models for transcriptional regulation are derived using the methods of equilibrium statistical mechanics, to model equilibrating processes that occur at a fast time sc...
Eric Mjolsness
BMCBI
2006
116views more  BMCBI 2006»
13 years 7 months ago
Optimized mixed Markov models for motif identification
Background: Identifying functional elements, such as transcriptional factor binding sites, is a fundamental step in reconstructing gene regulatory networks and remains a challengi...
Weichun Huang, David M. Umbach, Uwe Ohler, Leping ...
BMCBI
2007
158views more  BMCBI 2007»
13 years 7 months ago
Penalized likelihood for sparse contingency tables with an application to full-length cDNA libraries
Background: The joint analysis of several categorical variables is a common task in many areas of biology, and is becoming central to systems biology investigations whose goal is ...
Corinne Dahinden, Giovanni Parmigiani, Mark C. Eme...
ISMB
2000
13 years 9 months ago
Pattern Recognition of Genomic Features with Microarrays: Site Typing of Mycobacterium Tuberculosis Strains
Mycobacterium tuberculosis (M. tb.) strains differ in the number and locations of a transposon-like insertion sequence known as IS6110. Accurate detection of this sequence can be ...
Soumya Raychaudhuri, Joshua M. Stuart, Xuemin Liu,...
BMCBI
2007
95views more  BMCBI 2007»
13 years 7 months ago
Methods for estimating human endogenous retrovirus activities from EST databases
Background: Human endogenous retroviruses (HERVs) are surviving traces of ancient retrovirus infections and now reside within the human DNA. Recently HERV expression has been dete...
Merja Oja, Jaakko Peltonen, Jonas Blomberg, Samuel...