Andre Kahles
Andre Kahles
Department of Computer Science, ETH Zurich, Switzerland
Bestätigte E-Mail-Adresse bei inf.ethz.ch
Titel
Zitiert von
Zitiert von
Jahr
The molecular taxonomy of primary prostate cancer
CGAR Network
Cell 163 (4), 1011-1025, 2015
1405*2015
Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin
KA Hoadley, C Yau, DM Wolf, AD Cherniack, D Tamborero, S Ng, ...
Cell 158 (4), 929-944, 2014
10802014
Multiple reference genomes and transcriptomes for Arabidopsis thaliana
X Gan, O Stegle, J Behr, JG Steffen, P Drewe, KL Hildebrand, R Lyngsoe, ...
Nature 477 (7365), 419-423, 2011
6282011
Assessment of transcript reconstruction methods for RNA-seq
T Steijger, JF Abril, PG Engström, F Kokocinski, TJ Hubbard, R Guigó, ...
Nature methods 10 (12), 1177-1184, 2013
5362013
Systematic evaluation of spliced alignment programs for RNA-seq data
PG Engström, T Steijger, B Sipos, GR Grant, A Kahles, G Rätsch, ...
Nature methods 10 (12), 1185-1191, 2013
4562013
Pan-cancer analysis of whole genomes
I The, TPCA of Whole, Genomes Consortium
Nature 578 (7793), 82, 2020
3232020
DNA methylation in Arabidopsis has a genetic basis and shows evidence of local adaptation
MJ Dubin, P Zhang, D Meng, MS Remigereau, EJ Osborne, FP Casale, ...
elife 4, e05255, 2015
3022015
Comprehensive analysis of alternative splicing across tumors from 8,705 patients
A Kahles, KV Lehmann, NC Toussaint, M Hüser, SG Stark, ...
Cancer cell 34 (2), 211-224. e6, 2018
2472018
Nonsense-mediated decay of alternative precursor mRNA splicing variants is a major determinant of the Arabidopsis steady state transcriptome
G Drechsel, A Kahles, AK Kesarwani, E Stauffer, J Behr, P Drewe, ...
The Plant Cell 25 (10), 3726-3742, 2013
1532013
Analyses of non-coding somatic drivers in 2,658 cancer whole genomes
E Rheinbay, MM Nielsen, F Abascal, JA Wala, O Shapira, G Tiao, ...
Nature 578 (7793), 102-111, 2020
1382020
RNA‐Seq read alignments with PALMapper
G Jean, A Kahles, VT Sreedharan, FD Bona, G Rätsch
Current protocols in bioinformatics 32 (1), 11.6. 1-11.6. 37, 2010
802010
SplAdder: identification, quantification and testing of alternative splicing events from RNA-Seq data
A Kahles, CS Ong, Y Zhong, G Rätsch
Bioinformatics, btw076, 2016
702016
Polypyrimidine tract binding protein homologs from Arabidopsis are key regulators of alternative splicing with implications in fundamental developmental processes
C Rühl, E Stauffer, A Kahles, G Wagner, G Drechsel, G Rätsch, A Wachter
The Plant Cell 24 (11), 4360-4375, 2012
702012
MITIE: Simultaneous RNA-Seq-based transcript identification and quantification in multiple samples
J Behr, A Kahles, Y Zhong, VT Sreedharan, P Drewe, G Rätsch
Bioinformatics 29 (20), 2529-2538, 2013
592013
Genomic basis for RNA alterations in cancer
C Calabrese, NR Davidson, D Demircioğlu, NA Fonseca, Y He, A Kahles, ...
Nature 578 (7793), 129-136, 2020
532020
Accurate detection of differential RNA processing
P Drewe, O Stegle, L Hartmann, A Kahles, R Bohnert, A Wachter, ...
Nucleic acids research 41 (10), 5189-5198, 2013
472013
Alternative splicing substantially diversifies the transcriptome during early photomorphogenesis and correlates with the energy availability in Arabidopsis
L Hartmann, P Drewe-Boß, T Wießner, G Wagner, S Geue, HC Lee, ...
The Plant Cell 28 (11), 2715-2734, 2016
462016
Genome graphs
AM Novak, G Hickey, E Garrison, S Blum, A Connelly, A Dilthey, ...
bioRxiv, 101378, 2017
392017
Discovery and characterization of coding and non-coding driver mutations in more than 2,500 whole cancer genomes
E Rheinbay, MM Nielsen, F Abascal, G Tiao, H Hornshøj, JM Hess, ...
BioRxiv, 237313, 2017
372017
MMR: a tool for read multi-mapper resolution
A Kahles, J Behr, G Rätsch
Bioinformatics 32 (5), 770-772, 2016
342016
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