Fakultät für Informatik
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Technische Universität München
Lehrstuhl für Effiziente Algorithmen
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Modeling the breakage-fusion-bridge mechanism: Combinatorics and cancer genomics
Marcus Kinsella
,
Vineet Bafna
Lecture Notes in Computer Science
7262
, 2012, pp. 148-162
Speeding up tandem mass spectral identification using indexes
Xiaowen Liu
,
Alessandro Mammana
,
Vineet Bafna
Bioinformatics
28
(13), 2012, pp. 1692-1697
Bacterial community reconstruction using compressed sensing
Amnon Amir
,
Or Zuk
LNCS/LNBI
6577
, 2011, pp. 1-15
Constrained de novo sequencing of peptides with application to conotoxins
Swapnil Bhatia
,
Yong J. Kil
,
Beatrix Ueberheide
,
Brian Chait
,
Lemmuel L. Tayo
,
Lourdes J. Cruz
,
Bingwen Lu
,
John R. Yates III
,
Marshall Bern
LNCS/LNBI
6577
, 2011, pp. 16-30
Metabolic network analysis demystified
Leonid Chindelevitch
,
Aviv Regev
,
Bonnie Berger
LNCS/LNBI
6577
, 2011, pp. 31-33
Causal reasoning on biological networks: Interpreting transcriptional changes
Leonid Chindelevitch
,
Daniel Ziemek
,
Ahmed Enayetallah
,
Ranjit Randhawa
,
Ben Sidders
,
Christoph Brockel
,
Enoch Huang
LNCS/LNBI
6577
, 2011, pp. 34-37
Hapsembler: An assembler for highly polymorphic genomes
Nilgun Donmez
,
Michael Brudno
LNCS/LNBI
6577
, 2011, pp. 38-52
Discovery and characterization of chromatin states for systematic annotation of the human genome
Jason Ernst
,
Manolis Kellis
LNCS/LNBI
6577
, 2011, pp. 53-53
Disease gene prioritization based on topological similarity in protein-protein interaction networks
Sinan Erten
,
Gurkan Bebek
,
Mehmet Koyutürk
LNCS/LNBI
6577
, 2011, pp. 54-68
Opera: Reconstructing optimal genomic scaffolds with high-throughput paired-end sequences
Song Gao
,
Niranjan Nagarajan
,
Wing-Kin Sung
LNCS/LNBI
6577
, 2011, pp. 437-451
Understanding gene sequence variation in the context of transcription regulation in yeast
Irit Gat-Viks
,
Renana Meller
,
Martin Kupiec
,
Ron Shamir
LNCS/LNBI
6577
, 2011, pp. 69-69
Identifying branched metabolic pathways by merging linear metabolic pathways
Allison P. Heath
,
George N. Bennett
,
Lydia E. Kavraki
LNCS/LNBI
6577
, 2011, pp. 70-84
A probabilistic model for sequence alignment with context-sensitive indels
Glenn Hickey
,
Mathieu Blanchette
LNCS/LNBI
6577
, 2011, pp. 85-103
Simultaneous structural variation discovery in multiple paired-end sequenced genomes
Fereydoun Hormozdiari
,
Iman Hajirasouliha
,
Andrew McPherson
,
Evan E. Eichler
,
S. Cenk Sahinalp
LNCS/LNBI
6577
, 2011, pp. 104-105
Variable selection through correlation sifting
Jim C. Huang
,
Nebojsa Jojic
LNCS/LNBI
6577
, 2011, pp. 106-123
Weighted genomic distance can hardly impose a bound on the proportion of transpositions
Shuai Jiang
,
Max A. Alekseyev
LNCS/LNBI
6577
, 2011, pp. 124-133
PSAR: Measuring multiple sequence alignment reliability by probabilistic sampling
Jaebum Kim
,
Jian Ma
LNCS/LNBI
6577
, 2011, pp. 134-135
Sensitive gene fusion detection using ambiguously mapping RNA-Seq read pairs
Marcus Kinsella
,
Olivier Harismendy
,
Masakazu Nakano
,
Kelly A. Frazer
,
Vineet Bafna
Bioinformatics
27
(8), 2011, pp. 1068-1075
Pedigree reconstruction using identity by descent
Bonnie Kirkpatrick
,
Shuai Cheng Li
,
Richard M. Karp
,
Eran Halperin
LNCS/LNBI
6577
, 2011, pp. 136-152
A quantitative model of glucose signaling in yeast reveals an incoherent feed forward loop leading to a specific, transient pulse of transcription
Sooraj KuttyKrishnan
,
Jeffrey Sabina
,
Laura Langton
,
Mark Johnston
,
Michael R. Brent
LNCS/LNBI
6577
, 2011, pp. 153-153
Inferring mechanisms of compensation from E-MAP and SGA data using local search algorithms for max cut
Mark D.M. Leiserson
,
Diana Tatar
,
Lenore J. Cowen
,
Benjamin J. Hescott
LNCS/LNBI
6577
, 2011, pp. 154-167
IsoLasso: A LASSO regression approach to RNA-Seq based transcriptome assembly
Wei Li
,
Jianxing Feng
,
Tao Jiang
LNCS/LNBI
6577
, 2011, pp. 168-188
Haplotype reconstruction in large pedigrees with many untyped individuals
Xin Li
,
Jing Li
LNCS/LNBI
6577
, 2011, pp. 189-203
Learning cellular sorting pathways using protein interactions and sequence motifs
Tien-ho Lin
,
Ziv Bar-Joseph
,
Robert F. Murphy
LNCS/LNBI
6577
, 2011, pp. 204-221
A geometric arrangement algorithm for structure determination of symmetric protein homo-oligomers from NOEs and RDCs
Jeffrey W. Martin
,
Anthony K. Yan
,
Chris Bailey-Kellogg
,
Pei Zhou
,
Bruce R. Donald
LNCS/LNBI
6577
, 2011, pp. 222-237
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