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
1565*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
11532014
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
6472011
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
5612013
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
4812013
Pan-cancer analysis of whole genomes
I The, TPCA of Whole, Genomes Consortium
Nature 578 (7793), 82, 2020
4782020
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
3332015
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
2932018
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
2012020
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
1642013
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
852020
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
SplAdder: identification, quantification and testing of alternative splicing events from RNA-Seq data
A Kahles, CS Ong, Y Zhong, G Rätsch
Bioinformatics, btw076, 2016
792016
Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental …
C Rühl, E Stauffer, A Kahles, G Wagner, G Drechsel, G Rätsch, A Wachter
The Plant Cell 24 (11), 4360-4375, 2012
732012
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
642013
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
532016
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
482013
Genome graphs
AM Novak, G Hickey, E Garrison, S Blum, A Connelly, A Dilthey, ...
bioRxiv, 101378, 2017
432017
A pan-cancer transcriptome analysis reveals pervasive regulation through alternative promoters
D Demircioğlu, E Cukuroglu, M Kindermans, T Nandi, C Calabrese, ...
Cell 178 (6), 1465-1477. e17, 2019
422019
MMR: a tool for read multi-mapper resolution
A Kahles, J Behr, G Rätsch
Bioinformatics 32 (5), 770-772, 2016
392016
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Articles 1–20