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André J. Faure · SciRah

Researcher profile · Semantic Scholar

André J. Faure

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André J. Faure — researcher profile on SciRah

h-index: 19
Works: 40
Citations: 2,643

Most-cited papers

3D structure of individual mammalian genomes studied by single cell Hi-C
T. Stevens, D. Lando, S. Basu, Liam P. Atkinson +19 more
2017Nature759 citations Open access
Semantic Scholar
Mapping the energetic and allosteric landscapes of protein binding domains
André J. Faure, Júlia Domingo, Jörn M. Schmiedel, Cristina Hidalgo-Carcedo +2 more
2022Nature223 citations
Semantic Scholar
Cohesin-based chromatin interactions enable regulated gene expression within pre-existing architectural compartments
Vlad C. Seitan, André J. Faure, Ye Zhan, R. McCord +9 more
2014188 citations
Semantic Scholar
Cohesin regulates tissue-specific expression by stabilizing highly occupied cis-regulatory modules
André J. Faure, D. Schmidt, S. Watt, P. Schwalie +5 more
2012Genome Research177 citations Open access
Semantic Scholar
Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments
Vlad C. Seitan, André J. Faure, Ye Zhan, R. P. McCord +9 more
2013Genome Research163 citations Open access
Semantic Scholar
The mutational landscape of a prion-like domain
B. Bolognesi, André J. Faure, Mireia Seuma, Joern M Schmiedel +2 more
2019Nature Communications149 citations Open access
Semantic Scholar
The energetic and allosteric landscape for KRAS inhibition
Chen-Chun Weng, André J. Faure, Albert Escobedo, Ben Lehner
2022bioRxiv140 citations Open access
Semantic Scholar
Multi-species, multi-transcription factor binding highlights conserved control of tissue-specific biological pathways
B. Ballester, A. Medina-Rivera, D. Schmidt, Mar Gonzàlez-Porta +18 more
2014eLife100 citations Open access
Semantic Scholar
GENOME/2014/184986-Revised Spatial enhancer clustering and regulation of enhancer-proximal genes by cohesin.
Elizabeth Ing-Simmons, Vlad C. Seitan, André J. Faure, P. Flicek +6 more
201597 citations
Semantic Scholar
DiMSum: an error model and pipeline for analyzing deep mutational scanning data and diagnosing common experimental pathologies
André J. Faure, Jörn M. Schmiedel, Pablo Baeza-Centurión, Ben Lehner
2020Genome Biology91 citations Open access
Semantic Scholar
Systematic Analysis of the Determinants of Gene Expression Noise in Embryonic Stem Cells.
André J. Faure, Jörn M. Schmiedel, Ben Lehner
2017Cell Systems85 citations Open access
Semantic Scholar
Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes
P. Schwalie, M. C. Ward, Carolyn E. Cain, André J. Faure +3 more
2013Genome Biology81 citations Open access
Semantic Scholar
Spatial enhancer clustering and regulation of enhancer-proximal genes by cohesin
Elizabeth Ing-Simmons, Vlad C. Seitan, André J. Faure, P. Flicek +5 more
2015Genome Research75 citations Open access
Semantic Scholar
The genetic architecture of protein stability
André J. Faure, Aina Martí-Aranda, Cristina Hidalgo-Carcedo, Antoni Beltran +2 more
2023bioRxiv64 citations Open access
Semantic Scholar
MoCHI: neural networks to fit interpretable models and quantify energies, energetic couplings, epistasis, and allostery from deep mutational scanning data
André J. Faure, Ben Lehner
2024bioRxiv57 citations Open access
Semantic Scholar
The genetic landscape for amyloid beta fibril nucleation accurately discriminates familial Alzheimer’s disease mutations
Mireia Seuma, André J. Faure, Marta Badia, Ben Lehner +1 more
2020bioRxiv51 citations Open access
Semantic Scholar
An extension of the Walsh-Hadamard transform to calculate and model epistasis in genetic landscapes of arbitrary shape and complexity
André J. Faure, Ben Lehner, Verónica Miró Pina, Claudia Serrano Colome +1 more
2023bioRxiv27 citations Open access
Semantic Scholar
The allosteric landscape of the Src kinase
Antoni Beltran, Mohsin M. Naqvi, André J. Faure, Ben Lehner
2024bioRxiv22 citations Open access
Semantic Scholar
Genetics, energetics, and allostery in proteins with randomized cores and surfaces.
Albert Escobedo, Gesa Voigt, André J. Faure, Ben Lehner
2025Science21 citations
Semantic Scholar
Massively parallel genetic perturbation suggests the energetic structure of an amyloid-β transition state
A. Arutyunyan, Mireia Seuma, André J. Faure, B. Bolognesi +1 more
2025Science Advances15 citations Open access
Semantic Scholar
The genetic architecture of protein interaction affinity and specificity
A. Bendel, André J. Faure, D. Klein, K. Shimada +6 more
2024Nature Communications15 citations Open access
Semantic Scholar
Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes
P. Schwalie, M. C. Ward, Carolyn E. Cain, André J. Faure +3 more
2013Genome Biology14 citations Open access
Semantic Scholar
Fitness landscape of a dynamic RNA structure
Valerie W. C. Soo, J. B. Swadling, André J. Faure, Tobias Warnecke
2020bioRxiv12 citations Open access
Semantic Scholar
The genetic architecture of protein interaction affinity and specificity
A. Bendel, André J. Faure, D. Klein, K. Shimada +4 more
2023bioRxiv9 citations Open access
Semantic Scholar
Genetics, energetics and allostery during a billion years of hydrophobic protein core evolution
Albert Escobedo, Gesa Voigt, André J. Faure, Ben Lehner
2024bioRxiv8 citations Open access
Semantic Scholar
Global mapping of the energetic and allosteric landscapes of protein binding domains
André J. Faure, Júlia Domingo, Jörn M. Schmiedel, Cristina Hidalgo-Carcedo +2 more
2021bioRxiv8 citations Open access
Semantic Scholar
Allosteric and energetic remodeling of a PDZ domain by protein domain extensions
Cristina Hidalgo-Carcedo, André J. Faure, Aina Martí-Aranda, Taraneh Zarin +1 more
2026Nature Communications5 citations Open access
Semantic Scholar
Deep indel mutagenesis reveals the regulatory and modulatory architecture of alternative exon splicing
Pablo Baeza-Centurión, B. Miñana, André J. Faure, Mike Thompson +4 more
2024bioRxiv5 citations Open access
Semantic Scholar
Massively parallel genetic perturbation reveals the energetic architecture of an amyloid beta nucleation reaction
A. Arutyunyan, Mireia Seuma, André J. Faure, B. Bolognesi +1 more
2024bioRxiv1 citations Open access
Semantic Scholar
Investigating the effect of paralogs on microarray gene-set analysis
André J. Faure, C. Seoighe, N. Mulder
2011BMC Bioinformatics1 citations Open access
Semantic Scholar
Deep indel mutagenesis reveals the regulatory and modulatory architecture of alternative exon splicing
Pablo Baeza-Centurión, B. Miñana, André J. Faure, Mike Thompson +5 more
2025Nature Communications0 citations Open access
Semantic Scholar
Allosteric and Energetic Remodeling by Protein Domain Extensions
Cristina Hidalgo-Carcedo, André J. Faure, Aina Martí-Aranda, Taraneh Zarin +1 more
2025bioRxiv0 citations Open access
Semantic Scholar
An extension of the Walsh-Hadamard transform to 1 calculate and model epistasis in genetic landscapes of 2 arbitrary shape and complexity
André J. Faure, Ben Lehner, V. M. Pina, Claudia Serrano Colomé +2 more
20230 citations
Semantic Scholar
Author response: The genetic landscape for amyloid beta fibril nucleation accurately discriminates familial Alzheimer’s disease mutations
Mireia Seuma, André J. Faure, Marta Badia, Ben Lehner +1 more
20210 citations Open access
Semantic Scholar
Spatial enhancer clustering and regulation of enhancer-proximal genes by cohesin
Elizabeth Ing-Simmons, Vlad C. Seitan, André J. Faure, P. Flicek +5 more
20150 citations
Semantic Scholar
Author response: Multi-species, multi-transcription factor binding highlights conserved control of tissue-specific biological pathways
B. Ballester, A. Medina-Rivera, D. Schmidt, Mar Gonzàlez-Porta +18 more
20140 citations Open access
Semantic Scholar
Figure 8—source data 1.
B. Ballester, A. Medina-Rivera, D. Schmidt, Mar Gonzàlez-Porta +18 more
20140 citations Open access
Semantic Scholar
Microarray Gene-Set Analysis
André J. Faure, C. Seoighe
20130 citations
Semantic Scholar
regulatory modules cis occupied Cohesin regulates tissue-specific expression by stabilising highly
André J. Faure, D. Schmidt, S. Watt, P. Schwalie +5 more
20120 citations
Semantic Scholar
Energetic portrait of the amyloid beta nucleation transition state
A. Arutyunyan, Mireia Seuma, André J. Faure, BenedettaBolognesi +1 more
0 citations
Semantic Scholar

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