| Snakemake—a scalable bioinformatics workflow engine J Köster, S Rahmann Bioinformatics 28 (19), 2520-2522, 2012 | 1116 | 2012 |
| Bioconda: sustainable and comprehensive software distribution for the life sciences B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ... Nature methods 15 (7), 475-476, 2018 | 337 | 2018 |
| Mutational dynamics between primary and relapse neuroblastomas A Schramm, J Köster, Y Assenov, K Althoff, M Peifer, E Mahlow, ... Nature genetics 47 (8), 872-877, 2015 | 229 | 2015 |
| The public repository of xenografts enables discovery and randomized phase II-like trials in mice EC Townsend, MA Murakami, A Christodoulou, AL Christie, J Köster, ... Cancer cell 29 (4), 574-586, 2016 | 182 | 2016 |
| Quality control, modeling, and visualization of CRISPR screens with MAGeCK-VISPR W Li, J Köster, H Xu, CH Chen, T Xiao, JS Liu, M Brown, XS Liu Genome biology 16 (1), 1-13, 2015 | 144 | 2015 |
| Eleven grand challenges in single-cell data science D Lähnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ... Genome biology 21 (1), 1-35, 2020 | 109 | 2020 |
| MiR‐137 functions as a tumor suppressor in neuroblastoma by downregulating KDM1A K Althoff, A Beckers, A Odersky, P Mestdagh, J Köster, IM Bray, K Bryan, ... International journal of cancer 133 (5), 1064-1073, 2013 | 104 | 2013 |
| SimLoRD: simulation of long read data BK Stöcker, J Köster, S Rahmann Bioinformatics 32 (17), 2704-2706, 2016 | 63 | 2016 |
| VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis MI Cornwell, M Vangala, L Taing, Z Herbert, J Köster, B Li, H Sun, T Li, ... BMC bioinformatics 19 (1), 135, 2018 | 54 | 2018 |
| Practical computational reproducibility in the life sciences B Grüning, J Chilton, J Köster, R Dale, N Soranzo, M van den Beek, ... Cell systems 6 (6), 631-635, 2018 | 48 | 2018 |
| CRISPR-DO for genome-wide CRISPR design and optimization J Ma, J Köster, Q Qin, S Hu, W Li, C Chen, Q Cao, J Wang, S Mei, Q Liu, ... Bioinformatics 32 (21), 3336-3338, 2016 | 34 | 2016 |
| Next‐generation RNA sequencing reveals differential expression of MYCN target genes and suggests the mTOR pathway as a promising therapy target in MYCN‐amplified neuroblastoma A Schramm, J Köster, T Marschall, M Martin, M Schwermer, K Fielitz, ... International journal of cancer 132 (3), E106-E115, 2013 | 31 | 2013 |
| Exon-level expression analyses identify MYCN and NTRK1 as major determinants of alternative exon usage and robustly predict primary neuroblastoma outcome A Schramm, B Schowe, K Fielitz, M Heilmann, M Martin, T Marschall, ... British journal of cancer 107 (8), 1409-1417, 2012 | 25 | 2012 |
| Sensitivity to cdk1-inhibition is modulated by p53 status in preclinical models of embryonal tumors M Schwermer, S Lee, J Köster, T Van Maerken, H Stephan, A Eggert, ... Oncotarget 6 (17), 15425, 2015 | 18 | 2015 |
| Building and documenting workflows with python-based snakemake J Köster, S Rahmann German Conference on Bioinformatics 2012, 2012 | 14 | 2012 |
| Cancer evolution, mutations, and clonal selection in relapse neuroblastoma M Schulte, J Köster, S Rahmann, A Schramm Cell and tissue research 372 (2), 263-268, 2018 | 13 | 2018 |
| Full-length de novo viral quasispecies assembly through variation graph construction JA Baaijens, B Van der Roest, J Köster, L Stougie, A Schönhuth Bioinformatics 35 (24), 5086-5094, 2019 | 12 | 2019 |
| Identifying transcriptional miRNA biomarkers by integrating high-throughput sequencing and real-time PCR data S Rahmann, M Martin, JH Schulte, J Köster, T Marschall, A Schramm Methods 59 (1), 154-163, 2013 | 11 | 2013 |
| Assessment of rebound and relapse following ecallantide treatment for acute attacks of hereditary angioedema JA Bernstein, EP Shea, J Koester, R Iarrobino, WE Pullman Allergy 67 (9), 1173-1180, 2012 | 11 | 2012 |
| Rust-Bio: a fast and safe bioinformatics library J Köster Bioinformatics 32 (3), 444-446, 2016 | 10 | 2016 |
