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Technische Universität München
Lehrstuhl für Effiziente Algorithmen
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Multi-break rearrangements: From circular to linear genomes
Max A. Alekseyev
LNCS/LNBI
4751
, 2007, pp. 1-15
A pseudo-Boolean programming approach for computing the breakpoint distance between two genomes with duplicate genes
Sébastien Angibaud
,
Guillaume Fertin
,
Irena Rusu
,
Annelyse Thévenin
,
Stéphane Vialette
LNCS/LNBI
4751
, 2007, pp. 16-29
Improving inversion median computation using commuting reversals and cycle information
William Arndt
,
Jijun Tang
LNCS/LNBI
4751
, 2007, pp. 30-44
Inferring a duplication, speciation and loss history from a gene tree
Cedric Chauve
,
Jean-Philippe Doyon
,
Nadia El-Mabrouk
LNCS/LNBI
4751
, 2007, pp. 45-57
How to achieve an equivalent simple permutation in linear time
Simon Gog
,
Martin Bader
LNCS/LNBI
4751
, 2007, pp. 58-68
Baculovirus phylogeny based on genome rearrangements
Daniel Goodman
,
Noah Ollikainen
,
Chris Sholley
LNCS/LNBI
4751
, 2007, pp. 69-82
Learning gene regulatory networks via globally regularized risk minimization
Yuhong Guo
,
Dale Schuurmans
LNCS/LNBI
4751
, 2007, pp. 83-95
Evolution of tandemly arrayed genes in multiple species
Mathieu Lajoie
,
Denis Bertrand
,
Nadia El-Mabrouk
LNCS/LNBI
4751
, 2007, pp. 96-109
Selecting genomes for reconstruction of ancestral genomes
Guoliang Li
,
Jian Ma
,
Louxin Zhang
LNCS/LNBI
4751
, 2007, pp. 110-121
A heuristic algorithm for reconstructing ancestral gene orders with duplications
Jian Ma
,
Aakrosh Ratan
,
Louxin Zhang
,
Webb Miller
,
David Haussler
LNCS/LNBI
4751
, 2007, pp. 122-135
Reconstructing an inversion history in the Anopheles gambiae complex
Ai Xia
,
Maria V. Sharakhova
,
Igor V. Sharakhov
LNCS/LNBI
4751
, 2007, pp. 136-148
Recovering true rearrangement events on phylogenetic trees
Hao Zhao
,
Guillaume Bourque
LNCS/LNBI
4751
, 2007, pp. 149-161
Parts of the problem of polyploids in rearrangement phylogeny
Chunfang Zheng
,
Qian Zhu
,
David Sankoff
LNCS/LNBI
4751
, 2007, pp. 162-176
A rigorous analysis of the pattern of intron conservation supports the Coelomata clade of animals
Jie Zheng
,
Igor B. Rogozin
,
Eugene V. Koonin
,
Teresa M. Przytycka
LNCS/LNBI
4751
, 2007, pp. 177-191
Not all scale free networks are born equal: The role of the seed graph in PPI network emulation
Fereydoun Hormozdiari
,
Petra Berenbrink
,
Natas̑a Prz̑ulj
,
Cenk Sahinalp
LNCS/LNBI
4532
, 2007, pp. 1-13
Probabilistic paths for protein complex inference
Hailiang Huang
,
Lan V. Zhang
,
Frederick P. Roth
,
Joel S. Bader
LNCS/LNBI
4532
, 2007, pp. 14-28
Markov additive chains and applications to fragment statistics for peptide mass fingerprinting
Hans-Michael Kaltenbach
,
Sebastian Böcker
,
Sven Rahmann
LNCS/LNBI
4532
, 2007, pp. 29-41
A context-specific network of protein-DNA and protein-protein interactions reveals new regulatory motifs in human B cells
Celine Lefebvre
,
Wei Keat Lim
,
Katia Basso
,
Riccardo Dalla Favera
,
Andrea Califano
LNCS/LNBI
4532
, 2007, pp. 42-56
Identification and evaluation of functional modules in gene co-expression networks
Jianhua Ruan
,
Weixiong Zhang
LNCS/LNBI
4532
, 2007, pp. 57-76
A linear discrete dynamic system model for temporal gene interaction and regulatory network influence in response to bioethanol conversion inhibitor HMF for ethanologenic yeast
Mingzhou (Joe) Song
,
Z. Lewis Liu
LNCS/LNBI
4532
, 2007, pp. 77-95
A computational approach for the identification of site-specific protein glycosylations through ion-trap mass spectrometry
Yin Wu
,
Yehia Mechref
,
Iveta Klouckova
,
Milos V. Novotny
,
Haixu Tang
LNCS/LNBI
4532
, 2007, pp. 96-107
De novo signaling pathway predictions based on protein-protein interaction, targeted therapy and protein microarray analysis
Derek Ruths
,
Jen-Te Tseng
,
Luay Nakhleh
,
Prahlad T. Ram
LNCS/LNBI
4532
, 2007, pp. 108-118
Alignment of mass spectrometry data by clique finding and optimization
Daniel Fasulo
,
Anne-Katrin Emde
,
Lu-Yong Wang
,
Karin Noy
,
Nathan Edwards
LNCS/LNBI
4532
, 2007, pp. 119-129
QNet: A tool for querying protein interaction networks
Banu Dost
,
Tomer Shlomi
,
Nitin Gupta
,
Eytan Ruppin
,
Vineet Bafna
,
Roded Sharan
LNCS/LNBI
4453
, 2007, pp. 1-15
Pairwise global alignment of protein interaction networks by matching neighborhood topology
Rohit Singh
,
Jinbo Xu
,
Bonnie Berger
LNCS/LNBI
4453
, 2007, pp. 16-31
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