NG-Tax 2.0: A semantic framework for high-throughput amplicon analysis W Poncheewin, GDA Hermes, JCJ Van Dam, JJ Koehorst, H Smidt, ... Frontiers in genetics 10, 1366, 2020 | 105 | 2020 |
GeneFriends: an online co-expression analysis tool to identify novel gene targets for aging and complex diseases S van Dam, R Cordeiro, T Craig, J van Dam, SH Wood, JP de Magalhães BMC genomics 13 (1), 535, 2012 | 84 | 2012 |
Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data JJ Koehorst, JCJ Van Dam, RGA Van Heck, E Saccenti, ... Scientific reports 6, 38699, 2016 | 56 | 2016 |
SAPP: functional genome annotation and analysis through a semantic framework using FAIR principles JJ Koehorst, JCJ van Dam, E Saccenti, VAP Martins dos Santos, ... Bioinformatics 1, 3, 2017 | 55 | 2017 |
Regulation of Three Virulence Strategies of Mycobacterium tuberculosis: A Success Story NA Zondervan, JCJ van Dam, PJ Schaap, VAP Martins dos Santos, ... International journal of molecular sciences 19 (2), 347, 2018 | 51 | 2018 |
Consistency, inconsistency, and ambiguity of metabolite names in biochemical databases used for genome-scale metabolic modelling N Pham, RGA van Heck, JCJ van Dam, PJ Schaap, E Saccenti, ... Metabolites 9 (2), 28, 2019 | 39 | 2019 |
RDF2Graph a tool to recover, understand and validate the ontology of an RDF resource JCJ van Dam, JJ Koehorst, PJ Schaap, VAPM dos Santos, M Suarez-Diez Journal of biomedical semantics 6 (1), 39, 2015 | 21 | 2015 |
Integration of heterogeneous molecular networks to unravel gene-regulation in Mycobacterium tuberculosis JCJ van Dam, PJ Schaap, VAPM dos Santos, M Suárez-Diez BMC systems biology 8 (1), 111, 2014 | 19 | 2014 |
The Empusa code generator and its application to GBOL, an extendable ontology for genome annotation JCJ van Dam, JJ Koehorst, JO Vik, VAPM Dos Santos, PJ Schaap, ... Scientific data 6 (1), 1-9, 2019 | 14 | 2019 |
Interoperable genome annotation with GBOL, an extendable infrastructure for functional data mining JCJ van Dam, JJJ Koehorst, JO Vik, PJ Schaap, M Suarez-Diez bioRxiv, 184747, 2017 | 9 | 2017 |
Towards Computational Evaluation of Evidence for Scientific Assertions with Nanopublications and Cardinal Assertions A Gibson, JCJ Van Dam, EA Schultes, M Roos, B Mons Proceedings of the 5th International Workshop on Semantic Web Applications …, 2012 | 8 | 2012 |
SALARECON connects the Atlantic salmon genome to growth and feed efficiency M Zakhartsev, F Rotnes, M Gulla, O Øyås, JCJ van Dam, M Suarez-Diez, ... bioRxiv, 2021 | 4 | 2021 |
SyNDI: synchronous network data integration framework E Lindfors, JCJ van Dam, CMC Lam, NA Zondervan, VAPM Dos Santos, ... BMC bioinformatics 19 (1), 1-15, 2018 | 3 | 2018 |
Semantic systems biology of prokaryotes: heterogeneous data integration to understand bacterial metabolism JCJ van Dam | 1 | 2019 |
The Empusa code generator: bridging the gap between the intended and the actual content of RDF resources JCJ van Dam, JJ Koehorst, PJ Schaap, M Suarez-Diez arXiv preprint arXiv:1812.04386, 2018 | | 2018 |