Andre Kahles
Andre Kahles
Department of Computer Science, ETH Zurich, Switzerland
Verified email at inf.ethz.ch
Title
Cited by
Cited by
Year
The molecular taxonomy of primary prostate cancer
CGAR Network
Cell 163 (4), 1011-1025, 2015
1313*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
10272014
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
6072011
Assessment of transcript reconstruction methods for RNA-seq
T Steijger, JF Abril, PG Engström, F Kokocinski, M Akerman, T Alioto, ...
Nature methods 10 (12), 1177-1184, 2013
5202013
Systematic evaluation of spliced alignment programs for RNA-seq data
PG Engström, T Steijger, B Sipos, GR Grant, A Kahles, T Alioto, J Behr, ...
Nature methods 10 (12), 1185-1191, 2013
4472013
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
2782015
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
2142018
Pan-cancer analysis of whole genomes
I The, TPCA of Whole, Genomes Consortium
Nature 578 (7793), 82, 2020
2112020
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
1452013
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
912020
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
822010
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
672012
SplAdder: identification, quantification and testing of alternative splicing events from RNA-Seq data
A Kahles, CS Ong, Y Zhong, G Rätsch
Bioinformatics, btw076, 2016
582016
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
582013
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
462013
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
432016
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
342020
MMR: a tool for read multi-mapper resolution
A Kahles, J Behr, G Rätsch
Bioinformatics 32 (5), 770-772, 2016
332016
Hierarchical multitask structured output learning for large-scale sequence segmentation
N Görnitz, C Widmer, G Zeller, A Kahles, G Rätsch, S Sonnenburg
Advances in Neural Information Processing Systems, 2690-2698, 2011
312011
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
282017
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Articles 1–20