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» Selecting Genomes for Reconstruction of Ancestral Genomes
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BMCBI
2005
102views more  BMCBI 2005»
13 years 7 months ago
Genome-wide identification of the regulatory targets of a transcription factor using biochemical characterization and computatio
Background: A major challenge in computational genomics is the development of methodologies that allow accurate genome-wide prediction of the regulatory targets of a transcription...
Emmitt R. Jolly, Chen-Shan Chin, Ira Herskowitz, H...
CIE
2010
Springer
13 years 11 months ago
A Faster Algorithm for Finding Minimum Tucker Submatrices
A binary matrix has the Consecutive Ones Property (C1P) if its columns can be ordered in such a way that all 1s on each row are consecutive. Algorithmic issues of the C1P are centr...
Guillaume Blin, Romeo Rizzi, Stéphane Viale...
JCB
2008
52views more  JCB 2008»
13 years 7 months ago
Spectrum-Based De Novo Repeat Detection in Genomic Sequences
A novel approach to the detection of genomic repeats is presented in this paper. The technique, dubbed SAGRI (Spectrum Assisted Genomic Repeat Identifier), is based on the spectru...
Huy Hoang Do, Kwok Pui Choi, Franco P. Preparata, ...
BMCBI
2011
12 years 11 months ago
Acorn: A grid computing system for constraint based modeling and visualization of the genome scale metabolic reaction networks v
Background: Constraint-based approaches facilitate the prediction of cellular metabolic capabilities, based, in turn on predictions of the repertoire of enzymes encoded in the gen...
Jacek Sroka, Lukasz Bieniasz-Krzywiec, Szymon Gwoz...
CSB
2003
IEEE
110views Bioinformatics» more  CSB 2003»
14 years 1 months ago
Prokaryote Phylogeny without Sequence Alignment: From Avoidance Signature to Composition Distance
A new and essentially simple method to reconstruct prokaryotic phylogenetic trees from their complete genome data without using sequence alignment is proposed. It is based on the ...
Bailin Hao, Ji Qi