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BMCBI
2006
95views more  BMCBI 2006»
15 years 6 months ago
XcisClique: analysis of regulatory bicliques
Background: Modeling of cis-elements or regulatory motifs in promoter (upstream) regions of genes is a challenging computational problem. In this work, set of regulatory motifs si...
Amrita Pati, Cecilia Vasquez-Robinet, Lenwood S. H...
BMCBI
2006
85views more  BMCBI 2006»
15 years 6 months ago
Identification of physicochemical selective pressure on protein encoding nucleotide sequences
Background: Statistical methods for identifying positively selected sites in protein coding regions are one of the most commonly used tools in evolutionary bioinformatics. However...
Wendy S. W. Wong, Raazesh Sainudiin, Rasmus Nielse...
BMCBI
2006
116views more  BMCBI 2006»
15 years 6 months ago
Gene annotation and network inference by phylogenetic profiling
Background: Phylogenetic analysis is emerging as one of the most informative computational methods for the annotation of genes and identification of evolutionary modules of functi...
Jie Wu, Zhenjun Hu, Charles DeLisi
BMCBI
2006
123views more  BMCBI 2006»
15 years 6 months ago
Permutation test for periodicity in short time series data
Background: Periodic processes, such as the circadian rhythm, are important factors modulating and coordinating transcription of genes governing key metabolic pathways. Theoretica...
Andrey A. Ptitsyn, Sanjin Zvonic, Jeffrey M. Gimbl...
BMCBI
2006
155views more  BMCBI 2006»
15 years 6 months ago
AffyMiner: mining differentially expressed genes and biological knowledge in GeneChip microarray data
Background: DNA microarrays are a powerful tool for monitoring the expression of tens of thousands of genes simultaneously. With the advance of microarray technology, the challeng...
Guoqing Lu, The V. Nguyen, Yuannan Xia, Michael Fr...