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» Evolutionary sequence analysis of complete eukaryote genomes
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ICSE
1997
IEEE-ACM
15 years 1 months ago
Argo: A Design Environment for Evolving Software Architectures
Software architectures evolve as the result of numerous, interrelated design decisions. At any point in an architecture’s evolution, current decisions can critically affect alte...
Jason E. Robbins, David M. Hilbert, David F. Redmi...
BMCBI
2007
149views more  BMCBI 2007»
14 years 9 months ago
Identification of tissue-specific cis-regulatory modules based on interactions between transcription factors
Background: Evolutionary conservation has been used successfully to help identify cis-acting DNA regions that are important in regulating tissue-specific gene expression. Motivate...
Xueping Yu, Jimmy J. Lin, Donald J. Zack, Jiang Qi...
GCB
2004
Springer
223views Biometrics» more  GCB 2004»
15 years 1 months ago
PoSSuMsearch: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays
: In biological sequence analysis, position specific scoring matrices (PSSMs) are widely used to represent sequence motifs. In this paper, we present a new nonheuristic algorithm, ...
Michael Beckstette, Dirk Strothmann, Robert Homann...
BMCBI
2010
185views more  BMCBI 2010»
14 years 9 months ago
ABCtoolbox: a versatile toolkit for approximate Bayesian computations
Background: The estimation of demographic parameters from genetic data often requires the computation of likelihoods. However, the likelihood function is computationally intractab...
Daniel Wegmann, Christoph Leuenberger, Samuel Neue...
BMCBI
2011
14 years 4 months ago
Multithreaded comparative RNA secondary structure prediction using stochastic context-free grammars
Background: The prediction of the structure of large RNAs remains a particular challenge in bioinformatics, due to the computational complexity and low levels of accuracy of state...
Zsuzsanna Sukosd, Bjarne Knudsen, Morten Vaerum, J...