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» Automatic Structures: Richness and Limitations
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BMCBI
2008
145views more  BMCBI 2008»
14 years 11 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...
BMCBI
2007
116views more  BMCBI 2007»
14 years 11 months ago
primetv: a viewer for reconciled trees
Background: Evolutionary processes, such as gene family evolution or parasite-host cospeciation, can often be viewed as a tree evolving inside another tree. Relating two given tre...
Bengt Sennblad, Eva Schreil, Ann-Charlotte Berglun...
BMCBI
2008
149views more  BMCBI 2008»
14 years 11 months ago
Evolution of biological sequences implies an extreme value distribution of type I for both global and local pairwise alignment s
Background: Confidence in pairwise alignments of biological sequences, obtained by various methods such as Blast or Smith-Waterman, is critical for automatic analyses of genomic d...
Olivier Bastien, Eric Maréchal
BMCBI
2006
116views more  BMCBI 2006»
14 years 11 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 ...
PR
2008
141views more  PR 2008»
14 years 11 months ago
Robust and efficient multiclass SVM models for phrase pattern recognition
Phrase pattern recognition (phrase chunking) refers to automatic approaches for identifying predefined phrase structures in a stream of text. Support vector machines (SVMs)-based ...
Yu-Chieh Wu, Yue-Shi Lee, Jie-Chi Yang