| The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae MC Teixeira, PT Monteiro, JF Guerreiro, JP Gonçalves, NP Mira, ... Nucleic acids research 42 (D1), D161-D166, 2014 | 281 | 2014 |
| Candidate gene prioritization by network analysis of differential expression using machine learning approaches D Nitsch, JP Gonçalves, F Ojeda, B De Moor, Y Moreau BMC bioinformatics 11 (1), 1-16, 2010 | 139 | 2010 |
| Predicting disease associations via biological network analysis K Sun, JP Gonçalves, C Larminie, N Pržulj BMC bioinformatics 15 (1), 1-13, 2014 | 110 | 2014 |
| BiGGEsTS: integrated environment for biclustering analysis of time series gene expression data JP Gonçalves, SC Madeira, AL Oliveira BMC research notes 2 (1), 1-11, 2009 | 93 | 2009 |
| PINTA: a web server for network-based gene prioritization from expression data D Nitsch, LC Tranchevent, JP Gonçalves, JK Vogt, SC Madeira, Y Moreau Nucleic Acids Research 39 (suppl 2), W334-W338, 2011 | 80 | 2011 |
| Multiplexed Cas9 targeting reveals genomic location effects and gRNA-based staggered breaks influencing mutation efficiency S Gisler, JP Gonçalves, W Akhtar, J de Jong, AV Pindyurin, LFA Wessels, M ... Nature Communications, 2019 | 65 | 2019 |
| Advances and Perspectives for the Human BioMolecular Atlas Program (HuBMAP) S Jain, L Pei, JM Spraggins, M Angelo, JP Carson, N Gehlenborg, F Ginty, ... Nature Cell Biology, 2023 | 61 | 2023 |
| Interactogeneous: Disease Gene Prioritization Using Heterogeneous Networks and Full Topology Scores JP Gonçalves, AP Francisco, Y Moreau, SC Madeira PLOS ONE 7 (11), e49634, 2012 | 40 | 2012 |
| LateBiclustering: Efficient Heuristic Algorithm for Time-Lagged Bicluster Identification JP Gonçalves, SC Madeira IEEE/ACM Transactions on Computational Biology and Bioinformatics, doi:10 …, 2014 | 24 | 2014 |
| TFRank: network-based prioritization of regulatory associations underlying transcriptional responses JP Gonçalves, AP Francisco, NP Mira, MC Teixeira, I Sá-Correia, ... Bioinformatics 27 (22), 3149-3157, 2011 | 23 | 2011 |
| POLAR MAPPER: a computational tool for integrated visualization of protein interaction networks and mRNA expression data JP Gonçalves, M Grãos, AXCN Valente Journal of The Royal Society Interface 6 (39), 881-896, 2009 | 22 | 2009 |
| AliBiMotif: Integrating alignment and biclustering to unravel Transcription Factor Binding Sites in DNA sequences JP Gonçalves, Y Moreau, SC Madeira International journal of data mining and bioinformatics 6 (2), 196-215, 2012 | 16* | 2012 |
| Regulatory Snapshots: Integrative Mining of Regulatory Modules from Expression Time Series and Regulatory Networks JP Gonçalves, RS Aires, AP Francisco, SC Madeira PloS one 7 (5), e35977, 2012 | 13 | 2012 |
| The chromatin landscape of healthy and injured cell types in the human kidney DL Gisch, M Brennan, BB Lake, J Basta, MS Keller, RM Ferreira, ... Nature Communications 15 (433), 2024 | 10 | 2024 |
| Efficient Biclustering Algorithms for identifying transcriptional regulation relationships using time series gene expression data SC Madeira, JP Gonçalves, AL Oliveira INESC-ID Tec. Rep. 22/2007, 2007 | 5 | 2007 |
| Overcoming Selection Bias in Synthetic Lethality Prediction C Seale, Y Tepeli, JP Gonçalves Bioinformatics 38 (18), 4360–4368, 2022 | 4 | 2022 |
| ELISL: early-late integrated synthetic lethality prediction in cancer YI Tepeli, C Seale, JP Gonçalves Bioinformatics 40 (1), 2023 | 1 | 2023 |
| Precision Medicine in Nephrology: An Integrative Framework of Multidimensional Data in the Kidney Precision Medicine Project TM El-Achkar, MT Eadon, M Kretzler, J Himmelfarb, KPM Project American Journal of Kidney Diseases, 2023 | 1 | 2023 |
Sara C. MadeiraAssociate Professor,LASIGE,Departamento de Informática,Faculdade de Ciências,Universidade de Lisboa在 fc.ul.pt 的电子邮件经过验证
