| Efficient key pathway mining: combining networks and OMICS data N Alcaraz, T Friedrich, T Kötzing, A Krohmer, J Müller, J Pauling, ... Integrative Biology 4 (7), 756-764, 2012 | 49 | 2012 |
| KeyPathwayMiner 4.0: condition-specific pathway analysis by combining multiple omics studies and networks with Cytoscape N Alcaraz, J Pauling, R Batra, E Barbosa, A Junge, AGL Christensen, ... BMC systems biology 8 (1), 1-6, 2014 | 48 | 2014 |
| KeyPathwayMiner: detecting case-specific biological pathways using expression data N Alcaraz, H Kücük, J Weile, A Wipat, J Baumbach Internet Mathematics 7 (4), 299-313, 2011 | 48 | 2011 |
| De novo pathway-based biomarker identification N Alcaraz, M List, R Batra, F Vandin, HJ Ditzel, J Baumbach Nucleic acids research 45 (16), e151-e151, 2017 | 39 | 2017 |
| KeyPathwayMinerWeb: online multi-omics network enrichment M List, N Alcaraz, M Dissing-Hansen, HJ Ditzel, J Mollenhauer, ... Nucleic Acids Research 44 (W1), W98-W104, 2016 | 31 | 2016 |
| On the performance of de novo pathway enrichment R Batra, N Alcaraz, K Gitzhofer, J Pauling, HJ Ditzel, M Hellmuth, ... NPJ systems biology and applications 3 (1), 1-8, 2017 | 25 | 2017 |
| Robust de novo pathway enrichment with KeyPathwayMiner 5 N Alcaraz, M List, M Dissing-Hansen, M Rehmsmeier, Q Tan, ... F1000Research 5, 2016 | 14 | 2016 |
| Elucidation of epithelial–mesenchymal transition-related pathways in a triple-negative breast cancer cell line model by multi-omics interactome analysis JK Pauling, AG Christensen, R Batra, N Alcaraz, E Barbosa, MR Larsen, ... Integrative biology 6 (11), 1058-1068, 2014 | 13 | 2014 |
| Change in autoantibody and cytokine responses during the evolution of neuromyelitis optica in patients with systemic lupus erythematosus: A preliminary study KT Kovacs, SR Kalluri, A Boza-Serrano, T Deierborg, T Csepany, M Simo, ... Multiple Sclerosis Journal 22 (9), 1192-1201, 2016 | 12 | 2016 |
| Orthologous proteins of experimental de-and remyelination are differentially regulated in the CSF proteome of multiple sclerosis subtypes NA Martin, A Nawrocki, V Molnar, ML Elkjaer, EK Thygesen, M Palkovits, ... PLoS One 13 (8), e0202530, 2018 | 11 | 2018 |
| Elucidation of altered pathways in tumor‐initiating cells of triple‐negative breast cancer: A useful cell model system for drug screening AG Christensen, S Ehmsen, MG Terp, R Batra, N Alcaraz, J Baumbach, ... Stem Cells 35 (8), 1898-1912, 2017 | 9 | 2017 |
| A simulated annealing algorithm for maximum common edge subgraph detection in biological networks SJ Larsen, FG Alkćrsig, HJ Ditzel, I Jurisica, N Alcaraz, J Baumbach Proceedings of the Genetic and Evolutionary Computation Conference 2016, 341-348, 2016 | 7 | 2016 |
| The epigenetic factor BORIS (CTCFL) controls the androgen receptor regulatory network in ovarian cancer M Salgado-Albarrán, R González-Barrios, L Guerra-Calderas, N Alcaraz, ... Oncogenesis 8 (8), 1-12, 2019 | 5 | 2019 |
| CTCF-KDM4A complex correlates with histone modifications that negatively regulate CHD5 gene expression in cancer cell lines L Guerra-Calderas, R González-Barrios, CC Patińo, N Alcaraz, ... Oncotarget 9 (24), 17028, 2018 | 2 | 2018 |
| KeyPathwayMiner 4.0 N Alcaraz, J Pauling, R Batra, E Barbosa, A Junge, AG Christensen, ... BMC Systems Biology, 2014 | 2 | 2014 |
| The GBAF chromatin remodeling complex binds H3K27ac and mediates enhancer transcription K Jefimov, N Alcaraz, SL Kloet, S Värv, SA Sakya, CD Vaagenso, ... bioRxiv, 445148, 2018 | 1 | 2018 |
| Comparative transcriptome analysis reveals key epigenetic targets in SARS-CoV-2 infection M Salgado-Albarran, EI Navarro-Delgado, D Moral-Morales, N Alcaraz, ... arXiv preprint arXiv:2011.08902, 2020 | | 2020 |
| De Novo Pathway Enrichment with KeyPathwayMiner N Alcaraz, A Hartebrodt, M List Protein-Protein Interaction Networks, 181-199, 2020 | | 2020 |
| De Novo Pathway-Based Classification of Breast Cancer Subtypes M List, N Alcaraz, R Batra Protein-Protein Interaction Networks, 201-213, 2020 | | 2020 |
| A functional genetic screen identifies the Mediator complex as essential for SSX2-induced senescence NH Brückmann, SN Bennedsen, PHG Duijf, MG Terp, M Thomassen, ... Cell death & disease 10 (11), 1-12, 2019 | | 2019 |
