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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
2765*2015
Pan-cancer analysis of whole genomes
Nature 578 (7793), 82-93, 2020
1969*2020
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
15872014
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
8032018
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
7922013
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
7612011
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
6122013
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
5702020
DNA methylation in Arabidopsis has a genetic basis and shows evidence of local adaptation
MJ Dubin, P Zhang, D Meng, MS Remigereau, EJ Osborne, ...
elife 4, e05255, 2015
5152015
Genomic basis for RNA alterations in cancer
PCAWG Transcriptome Core Group Calabrese Claudia 2 Davidson Natalie R. 3 4 5 ...
Nature 578 (7793), 129-136, 2020
3032020
A global metagenomic map of urban microbiomes and antimicrobial resistance
D Danko, D Bezdan, EE Afshin, S Ahsanuddin, C Bhattacharya, DJ Butler, ...
Cell 184 (13), 3376-3393. e17, 2021
2602021
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
2382013
Biosynthetic potential of the global ocean microbiome
L Paoli, HJ Ruscheweyh, CC Forneris, F Hubrich, S Kautsar, A Bhushan, ...
Nature 607 (7917), 111-118, 2022
2332022
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
1812019
SplAdder: identification, quantification and testing of alternative splicing events from RNA-Seq data
A Kahles, CS Ong, Y Zhong, G Rätsch
Bioinformatics, btw076, 2016
1752016
The Tumor Profiler Study: integrated, multi-omic, functional tumor profiling for clinical decision support
A Irmisch, X Bonilla, S Chevrier, KV Lehmann, F Singer, NC Toussaint, ...
Cancer Cell 39 (3), 288-293, 2021
1112021
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
982012
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
872016
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
842010
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
762013
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Articles 1–20