WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research DN Slenter, M Kutmon, K Hanspers, A Riutta, J Windsor, N Nunes, ... Nucleic acids research 46 (D1), D661-D667, 2018 | 905 | 2018 |
The BioPAX community standard for pathway data sharing E Demir, MP Cary, S Paley, K Fukuda, C Lemer, I Vastrik, G Wu, ... Nature biotechnology 28 (9), 935-942, 2010 | 792 | 2010 |
WikiPathways: building research communities on biological pathways T Kelder, MP Van Iersel, K Hanspers, M Kutmon, BR Conklin, CT Evelo, ... Nucleic acids research 40 (D1), D1301-D1307, 2012 | 634 | 2012 |
WikiPathways: connecting communities M Martens, A Ammar, A Riutta, A Waagmeester, DN Slenter, K Hanspers, ... Nucleic acids research 49 (D1), D613-D621, 2021 | 622 | 2021 |
WikiPathways: capturing the full diversity of pathway knowledge M Kutmon, A Riutta, N Nunes, K Hanspers, EL Willighagen, A Bohler, ... Nucleic acids research 44 (D1), D488-D494, 2016 | 494 | 2016 |
PathVisio 3: an extendable pathway analysis toolbox M Kutmon, MP van Iersel, A Bohler, T Kelder, N Nunes, AR Pico, CT Evelo PLoS computational biology 11 (2), e1004085, 2015 | 473 | 2015 |
Inferring causal molecular networks: empirical assessment through a community-based effort SM Hill, LM Heiser, T Cokelaer, M Unger, NK Nesser, DE Carlin, Y Zhang, ... Nature methods 13 (4), 310-318, 2016 | 243 | 2016 |
SBML Level 3: an extensible format for the exchange and reuse of biological models SM Keating, D Waltemath, M König, F Zhang, A Dräger, C Chaouiya, ... Molecular systems biology 16 (8), e9110, 2020 | 211 | 2020 |
CyTargetLinker: a cytoscape app to integrate regulatory interactions in network analysis M Kutmon, T Kelder, P Mandaviya, CTA Evelo, SL Coort PloS one 8 (12), e82160, 2013 | 144 | 2013 |
COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms M Ostaszewski, A Niarakis, A Mazein, I Kuperstein, R Phair, ... Molecular systems biology 17 (10), e10387, 2021 | 84 | 2021 |
WikiPathways App for Cytoscape: Making biological pathways amenable to network analysis and visualization M Kutmon, S Lotia, CT Evelo, AR Pico F1000Research 3, 2014 | 76 | 2014 |
A pathway approach to investigate the function and regulation of SREBPs S Daemen, M Kutmon, CT Evelo Genes & nutrition 8, 289-300, 2013 | 72 | 2013 |
From SNPs to pathways: Biological interpretation of type 2 diabetes (T2DM) genome wide association study (GWAS) results E Cirillo, M Kutmon, M Gonzalez Hernandez, T Hooimeijer, ME Adriaens, ... PloS one 13 (4), e0193515, 2018 | 59 | 2018 |
Using the semantic web for rapid integration of WikiPathways with other biological online data resources A Waagmeester, M Kutmon, A Riutta, R Miller, EL Willighagen, CT Evelo, ... PLoS computational biology 12 (6), e1004989, 2016 | 56 | 2016 |
Reactome from a WikiPathways perspective A Bohler, G Wu, M Kutmon, LA Pradhana, SL Coort, K Hanspers, R Haw, ... PLoS computational biology 12 (5), e1004941, 2016 | 44 | 2016 |
Integrative multiomics analysis of human atherosclerosis reveals a serum response factor‐driven network associated with intraplaque hemorrhage H Jin, P Goossens, P Juhasz, W Eijgelaar, M Manca, JMH Karel, ... Clinical and translational medicine 11 (6), e458, 2021 | 41 | 2021 |
Pathway analysis of transcriptomic data shows immunometabolic effects of vitamin D AM Garcia, M Kutmon, L Eijssen, M Hewison, CT Evelo, SL Coort Journal of molecular endocrinology 60 (2), 95-108, 2018 | 34 | 2018 |
CyTargetLinker app update: A flexible solution for network extension in Cytoscape M Kutmon, F Ehrhart, EL Willighagen, CT Evelo, SL Coort F1000Research 7, 2018 | 34 | 2018 |
Visualizing the regulatory role of Angiopoietin-like protein 8 (ANGPTL8) in glucose and lipid metabolic pathways A Siddiqa, E Cirillo, SHK Tareen, A Ali, M Kutmon, LMT Eijssen, J Ahmad, ... Genomics 109 (5-6), 408-418, 2017 | 34 | 2017 |
The systems biology format converter N Rodriguez, JB Pettit, P Dalle Pezze, L Li, A Henry, MP van Iersel, ... BMC bioinformatics 17, 1-7, 2016 | 33 | 2016 |