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» Constraint Based Methods for Biological Sequence Analysis
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BIB
2010
140views more  BIB 2010»
14 years 10 months ago
Next generation sequencing in functional genomics
Genome-wide sequencing has enabled modern biomedical research to relate more and more events in healthy as well as disease-affected cells and tissues to the genomic sequence. Now ...
Thomas Werner
COMPLEX
2009
Springer
15 years 4 months ago
A Comparative Analysis of Specific Spatial Network Topological Models
Creating ensembles of random but "realistic" topologies for complex systems is crucial for many tasks such as benchmark generation and algorithm analysis. In general, exp...
Jun Wang, Gregory M. Provan
133
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GCB
2004
Springer
223views Biometrics» more  GCB 2004»
15 years 4 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
2004
125views more  BMCBI 2004»
15 years 13 days ago
A functional hierarchical organization of the protein sequence space
Background: It is a major challenge of computational biology to provide a comprehensive functional classification of all known proteins. Most existing methods seek recurrent patte...
Noam Kaplan, Moriah Friedlich, Menachem Fromer, Mi...
118
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BMCBI
2010
150views more  BMCBI 2010»
14 years 10 months ago
Kernel based methods for accelerated failure time model with ultra-high dimensional data
Background: Most genomic data have ultra-high dimensions with more than 10,000 genes (probes). Regularization methods with L1 and Lp penalty have been extensively studied in survi...
Zhenqiu Liu, Dechang Chen, Ming Tan, Feng Jiang, R...