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» Can we Find Molecular Signatures from Gene Expression Data
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BCB
2010
156views Bioinformatics» more  BCB 2010»
13 years 3 months ago
RepFrag: a graph based method for finding repeats and transposons from fragmented genomes
Growing sequencing and assembly efforts have been met by the advances in high throughput machines. However, the presence of massive amounts of repeats and transposons complicates ...
Nirmalya Bandyopadhyay, A. Mark Settles, Tamer Kah...
NAR
2008
142views more  NAR 2008»
13 years 8 months ago
CMGSDB: integrating heterogeneous Caenorhabditis elegans data sources using compositional data mining
CMGSDB (Database for Computational Modeling of Gene Silencing) is an integration of heterogeneous data sources about Caenorhabditis elegans with capabilities for compositional dat...
Amrita Pati, Ying Jin, Karsten Klage, Richard F. H...
BMCBI
2005
189views more  BMCBI 2005»
13 years 8 months ago
Quantitative inference of dynamic regulatory pathways via microarray data
Background: The cellular signaling pathway (network) is one of the main topics of organismic investigations. The intracellular interactions between genes in a signaling pathway ar...
Wen-Chieh Chang, Chang-Wei Li, Bor-Sen Chen
BMCBI
2007
109views more  BMCBI 2007»
13 years 8 months ago
A cis-regulatory logic simulator
Background: A major goal of computational studies of gene regulation is to accurately predict the expression of genes based on the cis-regulatory content of their promoters. The d...
Robert D. Zeigler, Jason Gertz, Barak A. Cohen
JMLR
2006
103views more  JMLR 2006»
13 years 8 months ago
MinReg: A Scalable Algorithm for Learning Parsimonious Regulatory Networks in Yeast and Mammals
In recent years, there has been a growing interest in applying Bayesian networks and their extensions to reconstruct regulatory networks from gene expression data. Since the gene ...
Dana Pe'er, Amos Tanay, Aviv Regev