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Jan Baumbach
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clusterMaker: a multi-algorithm clustering plugin for Cytoscape
JH Morris, L Apeltsin, AM Newman, J Baumbach, T Wittkop, G Su, ...
BMC bioinformatics 12 (1), 1-14, 2011
5382011
Comprehensive evaluation of transcriptome-based cell-type quantification methods for immuno-oncology
G Sturm, F Finotello, F Petitprez, JD Zhang, J Baumbach, WH Fridman, ...
Bioinformatics 35 (14), i436-i445, 2019
4712019
AltAnalyze and DomainGraph: analyzing and visualizing exon expression data
D Emig, N Salomonis, J Baumbach, T Lengauer, BR Conklin, M Albrecht
Nucleic acids research 38 (suppl_2), W755-W762, 2010
3182010
Mass-spectrometry-based draft of the Arabidopsis proteome
J Mergner, M Frejno, M List, M Papacek, X Chen, A Chaudhary, ...
Nature 579 (7799), 409-414, 2020
2652020
Graph-based analysis and visualization of experimental results with ONDEX
J Köhler, J Baumbach, J Taubert, M Specht, A Skusa, A Rüegg, ...
Bioinformatics 22 (11), 1383-1390, 2006
2532006
Comparing the performance of biomedical clustering methods
C Wiwie, J Baumbach, R Röttger
Nature methods 12 (11), 1033-1038, 2015
2362015
Current breathomics—a review on data pre-processing techniques and machine learning in metabolomics breath analysis
A Smolinska, AC Hauschild, RRR Fijten, JW Dallinga, J Baumbach, ...
Journal of breath research 8 (2), 027105, 2014
1802014
Osteogenesis depends on commissioning of a network of stem cell transcription factors that act as repressors of adipogenesis
A Rauch, AK Haakonsson, JGS Madsen, M Larsen, I Forss, MR Madsen, ...
Nature genetics 51 (4), 716-727, 2019
1452019
Exploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing
S Sadegh, J Matschinske, DB Blumenthal, G Galindez, T Kacprowski, ...
Nature communications 11 (1), 3518, 2020
1422020
Arrhythmic gut microbiome signatures predict risk of type 2 diabetes
S Reitmeier, S Kiessling, T Clavel, M List, EL Almeida, TS Ghosh, ...
Cell host & microbe 28 (2), 258-272. e6, 2020
1402020
Partitioning biological data with transitivity clustering
T Wittkop, D Emig, S Lange, S Rahmann, M Albrecht, JH Morris, S Böcker, ...
Nature methods 7 (6), 419-420, 2010
1312010
From single drug targets to synergistic network pharmacology in ischemic stroke
AI Casas, AA Hassan, SJ Larsen, V Gomez-Rangel, M Elbatreek, ...
Proceedings of the National Academy of Sciences 116 (14), 7129-7136, 2019
1292019
Molecular networks in Network Medicine: Development and applications
EK Silverman, HHHW Schmidt, E Anastasiadou, L Altucci, M Angelini, ...
Wiley Interdisciplinary Reviews: Systems Biology and Medicine 12 (6), e1489, 2020
1262020
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research
F Hufsky, K Lamkiewicz, A Almeida, A Aouacheria, C Arighi, A Bateman, ...
Briefings in bioinformatics 22 (2), 642-663, 2021
1222021
GIPSy: genomic island prediction software
SC Soares, H Geyik, RTJ Ramos, PHCG de Sá, EGV Barbosa, ...
Journal of biotechnology 232, 2-11, 2016
1182016
Analysis of the airway microbiota of healthy individuals and patients with chronic obstructive pulmonary disease by T-RFLP and clone sequencing
T Zakharkina, E Heinzel, RA Koczulla, T Greulich, K Rentz, JK Pauling, ...
PloS one 8 (7), e68302, 2013
1122013
Evidence for Reductive Genome Evolution and Lateral Acquisition of Virulence Functions in Two Corynebacterium pseudotuberculosis Strains
JC Ruiz, V D'Afonseca, A Silva, A Ali, AC Pinto, AR Santos, AAMC Rocha, ...
PloS one 6 (4), e18551, 2011
1122011
Large scale clustering of protein sequences with FORCE-A layout based heuristic for weighted cluster editing
T Wittkop, J Baumbach, FP Lobo, S Rahmann
BMC bioinformatics 8 (1), 1-12, 2007
1022007
The GlxR regulon of the amino acid producer Corynebacterium glutamicum: in silico and in vitro detection of DNA binding sites of a global transcription regulator
TA Kohl, J Baumbach, B Jungwirth, A Pühler, A Tauch
Journal of biotechnology 135 (4), 340-350, 2008
1012008
Exact and heuristic algorithms for weighted cluster editing
S Rahmann, T Wittkop, J Baumbach, M Martin, A Truss, S Böcker
Computational Systems Bioinformatics: (Volume 6), 391-401, 2007
952007
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