Fakultät für Informatik
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Technische Universität München
Lehrstuhl für Effiziente Algorithmen
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Generalizing the splits equivalence theorem and four gamete condition: Perfect phylogeny on three-state characters
Fumei Lam
,
Dan Gusfield
,
Srinath Sridhar
SIAM Journal on Discrete Mathematics
25
(3), 2011, pp. 1144-1175
The Multi-State Perfect Phylogeny Problem with missing and removable data: Solutions via integer-programming and chordal graph theory
Dan Gusfield
LNCS/LNBI
5541
, 2009, pp. 236-252
ReCombinatorics: Combinatorial algorithms for studying the history of recombination in populations
Dan Gusfield
Lecture Notes in Computer Science
5029
, 2008, pp. 1-2
Integer programming formulations and computations solving phylogenetic and population genetic problems with missing or genotypic data
Dan Gusfield
,
Yelena Frid
,
Dan Brown
Lecture Notes in Computer Science
4598
, 2007, pp. 51-64
Improved algorithms for inferring the minimum mosaic of a set of recombinants
Yufeng Wu
,
Dan Gusfield
Lecture Notes in Computer Science
4580
, 2007, pp. 150-161
A new recombination lower bound and the minimum perfect phylogenetic forest problem
Yufeng Wu
,
Dan Gusfield
Lecture Notes in Computer Science
4598
, 2007, pp. 16-26
Algorithms to distinguish the role of gene-conversion from single-crossover recombination in the derivation of SNP sequences in populations
Yun S. Song
,
Zhihong Ding
,
Dan Gusfield
,
Charles H. Langley
,
Yufeng Wu
LNCS/LNBI
3909
, 2006, pp. 231-245
A linear-time algorithm for the Perfect Phylogeny Haplotyping (PPH) problem
Zhihong Ding
,
Vladimir Filkov
,
Dan Gusfield
LNCS/LNBI
3500
, 2005, pp. 585-600
A fundamental decomposition theory for phylogenetic networks and incompatible characters
Dan Gusfield
,
Vikas Bansal
LNCS/LNBI
3500
, 2005, pp. 217-232
Optimal, efficient reconstruction of root-unknown phylogenetic networks with constrained and structured recombination
Dan Gusfield
Journal of Computer and System Sciences
70
(3), 2005, pp. 381-398
Efficient computation of close lower and upper bounds on the minimum number of recombinations in biological sequence evolution
Yun S. Song
,
Yufeng Wu
,
Dan Gusfield
Bioinformatics
21
(S1), 2005, pp. 413-422
Algorithms for imperfect phylogeny haplotyping (IPPH) with a single homoplasy or recombination event
Yun S. Song
,
Yufeng Wu
,
Dan Gusfield
LNCS/LNBI
3692
, 2005, pp. 152-164
Gene tree reconstruction and orthology analysis based on an integrated model for duplications and sequence evolution
Lars Arvestad
,
Ann-Charlotte Berglund
,
Jens Lagergren
,
Bengt Sennblad
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 326-335
Haplotyping as perfect phylogeny
Vineet Bafna
,
Dan Gusfield
,
Giuseppe Lancia
,
Shibu Yooseph
LNCS/LNBI
2983
, 2004, pp. 131-131
A random graph approach to NMR sequential assignment
Chris Bailey-Kellogg
,
Sheetal Chainraj
,
Gopal Pandurangan
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 58-67
Interface surfaces for protein-protein complexes
Yih-En Andrew Ban
,
Herbert Edelsbrunner
,
Johannes Rudolph
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 205-212
Probabilistic discovery of overlapping cellular processes and their regulation
Alexis Battle
,
Eran Segal
,
Daphne Koller
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 167-176
Learning multiple evolutionary pathways from cross-sectional data
Niko Beerenwinkel
,
Jörg Rahnenführer
,
Martin Däumer
,
Daniel Hoffmann
,
Rolf Kaiser
,
Joachim Selbig
,
Thomas Lengauer
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 36-44
Recent advances on the manipulation of single biomolecules
Carlos Bustamante
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 357-357
Multiple organism gene finding by collapsed Gibbs sampling
Sourav Chatterji
,
Lior Pachter
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 187-193
Finding motifs for insufficient number of sequences with strong binding to transcription facto
Francis Y.L. Chin
,
Henry C.M. Leung
,
S.M. Yiu
,
T.W. Lam
,
Roni Rosenfeld
,
W.W. Tsang
,
David K. Smith
,
Y. Jiang
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 125-132
Fifty years of sequence analysis: What have we learned?
Russell F. Doolittle
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 281-281
Protein similarity from knot theory and geometric convolution
Michael A. Erdmann
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 195-204
From profiles to patterns and back again: A branch and bound algorithm for finding near optimal motif profiles
Eleazar Eskin
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 115-124
Discovering temporal relations in molecular pathways using protein-protein interactions
Martin Farach-Colton
,
Yang Huang
,
John L. Woolford
Proceedings of the 8th Annual International Conference on Research in Computational Molecular Biology, RECOMB'2004 (San Diego, CA, USA, March 27-31, 2004)
, 2004, pp. 150-156
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