Critical Assessment of Metagenome Interpretation [mdash] a benchmark of metagenomics software A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ... Nature methods 14 (11), 1063-1071, 2017 | 800 | 2017 |
Critical Assessment of Metagenome Interpretation: the second round of challenges F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ... Nature methods 19 (4), 429-440, 2022 | 251 | 2022 |
Individualized vaccines for cancer U Sahin, S Kreiter, M Diken, J Diekmann, M Koslowski, C Britten, ... US Patent 10,738,355, 2020 | 181 | 2020 |
Docking small peptides remains a great challenge: an assessment using AutoDock Vina R Rentzsch, BY Renard Briefings in bioinformatics 16 (6), 1045-1056, 2015 | 146 | 2015 |
Concise representation of mass spectrometry images by probabilistic latent semantic analysis M Hanselmann, M Kirchner, BY Renard, ER Amstalden, K Glunde, ... Analytical chemistry 80 (24), 9649-9658, 2008 | 140 | 2008 |
Evaluating de novo sequencing in proteomics: already an accurate alternative to database-driven peptide identification? T Muth, BY Renard Briefings in bioinformatics 19 (5), 954-970, 2018 | 119 | 2018 |
Toward digital staining using imaging mass spectrometry and random forests M Hanselmann, U Köthe, M Kirchner, BY Renard, ER Amstalden, ... Journal of proteome research 8 (7), 3558-3567, 2009 | 110 | 2009 |
Recursive feature elimination in random forest classification supports nanomaterial grouping A Bahl, B Hellack, M Balas, A Dinischiotu, M Wiemann, J Brinkmann, ... NanoImpact 15, 100179, 2019 | 107 | 2019 |
Life cycle stage-resolved proteomic analysis of the excretome/secretome from Strongyloides ratti—identification of stage-specific proteases H Soblik, AE Younis, M Mitreva, BY Renard, M Kirchner, F Geisinger, ... Molecular & Cellular Proteomics 10 (12), M111. 010157, 2011 | 105 | 2011 |
NITPICK: peak identification for mass spectrometry data BY Renard, M Kirchner, H Steen, JAJ Steen, FA Hamprecht BMC bioinformatics 9 (1), 1-16, 2008 | 104 | 2008 |
Binding partner switching on microtubules and aurora-B in the mitosis to cytokinesis transition N Özlü, F Monigatti, BY Renard, CM Field, H Steen, TJ Mitchison, ... Molecular & Cellular Proteomics 9 (2), 336-350, 2010 | 99 | 2010 |
Metagenomic abundance estimation and diagnostic testing on species level MS Lindner, BY Renard Nucleic acids research 41 (1), e10-e10, 2013 | 96 | 2013 |
Metaproteomic data analysis at a glance: advances in computational microbial community proteomics T Muth, BY Renard, L Martens Expert Review of Proteomics 13 (8), 757-769, 2016 | 93 | 2016 |
Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis H Schiebenhoefer, T Van Den Bossche, S Fuchs, BY Renard, T Muth, ... Expert review of proteomics 16 (5), 375-390, 2019 | 92 | 2019 |
When less can yield more–computational preprocessing of MS/MS spectra for peptide identification BY Renard, M Kirchner, F Monigatti, AR Ivanov, J Rappsilber, D Winter, ... Proteomics 9 (21), 4978-4984, 2009 | 88 | 2009 |
Parasitic nematodes exert antimicrobial activity and benefit from microbiota-driven support for host immune regulation S Rausch, A Midha, M Kuhring, N Affinass, A Radonic, AA Kühl, A Bleich, ... Frontiers in immunology 9, 2282, 2018 | 85 | 2018 |
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows T Van Den Bossche, BJ Kunath, K Schallert, SS Schäpe, PE Abraham, ... Nature Communications 12 (1), 1-15, 2021 | 82 | 2021 |
PaPrBaG: A machine learning approach for the detection of novel pathogens from NGS data C Deneke, R Rentzsch, BY Renard Scientific reports 7 (1), 39194, 2017 | 81 | 2017 |
The proteome of the isolated Chlamydia trachomatis containing vacuole reveals a complex trafficking platform enriched for retromer components L Aeberhard, S Banhart, M Fischer, N Jehmlich, L Rose, S Koch, M Laue, ... PLoS Pathog 11 (6), e1004883, 2015 | 80 | 2015 |
A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane H Schiebenhoefer, K Schallert, BY Renard, K Trappe, E Schmid, ... Nature Protocols 15 (10), 3212-3239, 2020 | 71 | 2020 |