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Algorithms for Molecular Biology, Volume 1
Volume 1, 2006
- Burkhard Morgenstern
, Peter F. Stadler
New journal: Algorithms for Molecular Biology. - Xiaowen Liu
Finding the region of pseudo-periodic tandem repeats in biological sequences. - Stephan H. Bernhart, Hakim Tafer
Partition function and base pairing probabilities of RNA heterodimers. - Alberto Apostolico, Matteo Comin
Mining, compressing and classifying with extensible motifs. - Grégory Nuel:
Effective p-value computations using Finite Markov Chain Imbedding (FMCI): application to local score and to pattern statistics. - Burkhard Morgenstern
Multiple sequence alignment with user-defined anchor points. - Elena Zotenko
Decomposition of overlapping protein complexes: A graph theoretical method for analyzing static and dynamic protein associations. - Nan Li, Martin Tompa:
Analysis of computational approaches for motif discovery. - Katharina Anna Lehmann
On the maximal cliques in c-max-tolerance graphs and their application in clustering molecular sequences. - Peter Meinicke, Thomas Brodag, Wolfgang Florian Fricke
P-value based visualization of codon usage data. - James Lu
Inverse bifurcation analysis: application to simple gene systems. - Giuseppe Lancia
The approximability of the String Barcoding problem. - Elena Zaslavsky
A combinatorial optimization approach for diverse motif finding applications. - Jonathan E. Allen
A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons. - Gregory A. Grothaus, Adeel Mufti, T. M. Murali:
Automatic layout and visualization of biclusters. - Chris Christiansen, Thomas Mailund
Fast calculation of the quartet distance between trees of arbitrary degrees. - Grégory Nuel:
Pattern statistics on Markov chains and sensitivity to parameter estimation. - Jonas S. Almeida, Susana Vinga
Computing distribution of scale independent motifs in biological sequences. - Andreas Wilm
An enhanced RNA alignment benchmark for sequence alignment programs. - Martin Paluszewski, Thomas Hamelryck
Reconstructing protein structure from solvent exposure using tabu search. - Yongqiang Zhang, Mohammed J. Zaki
EXMOTIF: efficient structured motif extraction. - Yongqiang Zhang, Mohammed J. Zaki
SMOTIF: efficient structured pattern and profile motif search. - Chandan K. Reddy
Refining motifs by improving information content scores using neighborhood profile search. - Woochang Hwang, Young-Rae Cho
A novel functional module detection algorithm for protein-protein interaction networks. - Alexander L. Tournier, Paul W. Fitzjohn, Paul A. Bates
Probability-based model of protein-protein interactions on biological timescales.
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