Emanuel Gonçalves
Emanuel Gonçalves
Verified email at sanger.ac.uk - Homepage
Cited by
Cited by
A landscape of pharmacogenomic interactions in cancer
F Iorio, TA Knijnenburg, DJ Vis, GR Bignell, MP Menden, M Schubert, ...
Cell 166 (3), 740-754, 2016
Fumarate is an epigenetic modifier that elicits epithelial-to-mesenchymal transition
M Sciacovelli, E Gonçalves, TI Johnson, VR Zecchini, ASH da Costa, ...
Nature 537 (7621), 544-547, 2016
Prioritization of cancer therapeutic targets using CRISPR–Cas9 screens
FM Behan, F Iorio, G Picco, E Gonçalves, CM Beaver, G Migliardi, ...
Nature 568 (7753), 511-516, 2019
CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms
CDA Terfve, T Cokelaer, D Henriques, A MacNamara, E Gonçalves, ...
BMC Systems Biology 6 (1), 133, 2012
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools
C Chaouiya, D Bérenguier, SM Keating, A Naldi, MP Van Iersel, ...
BMC systems biology 7 (1), 1-15, 2013
Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models
E Gonçalves, J Bucher, A Ryll, J Niklas, K Mauch, S Klamt, M Rocha, ...
Molecular BioSystems 9 (7), 1576-1583, 2013
DvD: An R/Cytoscape pipeline for drug repurposing using public repositories of gene expression data
C Pacini, F Iorio, E Gonçalves, M Iskar, T Klabunde, P Bork, ...
Bioinformatics 29 (1), 132-134, 2013
Genomic determinants of protein abundance variation in colorectal cancer cells
TI Roumeliotis, SP Williams, E Goncalves, FZ Ghavidel, N Aben, ...
Cell Reports 20 (9), 2201–2214, 2017
Widespread post-transcriptional attenuation of genomic copy-number variation in cancer
E Gonçalves, A Fragoulis, L Garcia-Alonso, T Cramer, J Saez-Rodriguez, ...
Cell systems 5 (4), 386-398. e4, 2017
Unsupervised correction of gene-independent cell responses to CRISPR-Cas9 targeting
F Iorio, FM Behan, E Gonçalves, SG Bhosle, E Chen, R Shepherd, ...
BMC genomics 19 (1), 1-16, 2018
Benchmarking substrate-based kinase activity inference using phosphoproteomic data
C Hernandez-Armenta, D Ochoa, E Gonçalves, J Saez-Rodriguez, ...
Bioinformatics 33 (12), 1845-1851, 2017
Systematic analysis of transcriptional and post-transcriptional regulation of metabolism in yeast
E Gonçalves, Z Raguz Nakic, M Zampieri, O Wagih, D Ochoa, U Sauer, ...
PLoS computational biology 13 (1), e1005297, 2017
Agreement between two large pan-cancer CRISPR-Cas9 gene dependency data sets
JM Dempster, C Pacini, S Pantel, FM Behan, T Green, J Krill-Burger, ...
Nature communications 10 (1), 1-14, 2019
Functional linkage of gene fusions to cancer cell fitness assessed by pharmacological and CRISPR-Cas9 screening
G Picco, ED Chen, LG Alonso, FM Behan, E Gonçalves, G Bignell, ...
Nature communications 10 (1), 1-12, 2019
Optimization approaches for the in silico discovery of optimal targets for gene over/underexpression
E Gonçalves, R Pereira, I Rocha, M Rocha
Journal of Computational Biology 19 (2), 102-114, 2012
Structural rearrangements generate cell-specific, gene-independent CRISPR-Cas9 loss of fitness effects
E Gonçalves, FM Behan, S Louzada, D Arnol, EA Stronach, F Yang, ...
Genome biology 20 (1), 27, 2019
A model integration approach linking signalling and gene-regulatory logic with kinetic metabolic models
A Ryll, J Bucher, A Bonin, S Bongard, E Gonçalves, J Saez-Rodriguez, ...
Biosystems 124, 26-38, 2014
A community challenge for inferring genetic predictors of gene essentialities through analysis of a functional screen of cancer cell lines
M Gönen, BA Weir, GS Cowley, F Vazquez, Y Guan, A Jaiswal, ...
Cell systems 5 (5), 485-497. e3, 2017
CySBGN: a cytoscape plug-in to integrate SBGN maps
E Gonçalves, M van Iersel, J Saez-Rodriguez
BMC bioinformatics 14 (1), 17, 2013
Post-translational regulation of metabolism in fumarate hydratase deficient cancer cells
E Gonçalves, M Sciacovelli, ASH Costa, TI Johnson, D Machado, ...
Metabolic Engineering, 2017
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