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SIAMCOMP
2000
90views more  SIAMCOMP 2000»
9 years 11 months ago
From Gene Trees to Species Trees
This paper studies various algorithmic issues in reconstructing a species tree from gene trees under the duplication and the mutation cost model. This is a fundamental problem in c...
Bin Ma, Ming Li, Louxin Zhang
IDA
2006
Springer
9 years 11 months ago
Structural hidden Markov models: An application to handwritten numeral recognition
We introduce in this paper a generalization of the widely used hidden Markov models (HMM's), which we name "structural hidden Markov models" (SHMM). Our approach is ...
Djamel Bouchaffra, Jun Tan
BMCBI
2007
151views more  BMCBI 2007»
9 years 11 months ago
Identification of hot regions in protein-protein interactions by sequential pattern mining
Background: Identification of protein interacting sites is an important task in computational molecular biology. As more and more protein sequences are deposited without available...
Chen-Ming Hsu, Chien-Yu Chen, Baw-Jhiune Liu, Chih...
ESWA
2006
148views more  ESWA 2006»
9 years 11 months ago
Applications of artificial intelligence in bioinformatics: A review
Artificial intelligence (AI) has increasingly gained attention in bioinformatics research and computational molecular biology. With the availability of different types of AI algor...
Zoheir Ezziane
ALMOB
2006
138views more  ALMOB 2006»
9 years 11 months ago
A combinatorial optimization approach for diverse motif finding applications
Background: Discovering approximately repeated patterns, or motifs, in biological sequences is an important and widely-studied problem in computational molecular biology. Most fre...
Elena Zaslavsky, Mona Singh
CPM
2004
Springer
107views Combinatorics» more  CPM 2004»
10 years 3 months ago
Sorting by Reversals in Subquadratic Time
The problem of sorting a signed permutation by reversals is inspired by genome rearrangements in computational molecular biology. Given two genomes represented as two signed permut...
Eric Tannier, Marie-France Sagot
PREMI
2005
Springer
10 years 5 months ago
Computational Molecular Biology of Genome Expression and Regulation
Abstract. Technological advances in experimental and computational molecular biology have revolutionized the whole fields of biology and medicine. Large-scale sequencing, expressio...
Michael Q. Zhang
CPM
2005
Springer
97views Combinatorics» more  CPM 2005»
10 years 5 months ago
On the Complexity of Sparse Exon Assembly
Gene structure prediction is one of the most important problems in computational molecular biology. It involves two steps: the first is finding the evidence (e.g. predicting spl...
Carmel Kent, Gad M. Landau, Michal Ziv-Ukelson
SAC
2009
ACM
10 years 6 months ago
GTfold: a scalable multicore code for RNA secondary structure prediction
The prediction of the correct secondary structures of large RNAs is one of the unsolved challenges of computational molecular biology. Among the major obstacles is the fact that a...
Amrita Mathuriya, David A. Bader, Christine E. Hei...
RECOMB
2001
Springer
10 years 11 months ago
A new approach to sequence comparison: normalized sequence alignment
The Smith-Waterman algorithm for local sequence alignment is one of the most important techniques in computational molecular biology. This ingenious dynamic programming approach w...
Abdullah N. Arslan, Ömer Egecioglu, Pavel A. ...
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