Vert, Jean-Philippe

HiC-Pro: an optimized and flexible pipeline for Hi-C data processing.

Servant, N., Varoquaux, N., Lajoie, B. R., Viara, E., Chen, C.-J., Vert, J.-P., Heard, E., Dekker, J., & Barillot, E. (2015) · Genome Biology

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 2,565

A general and flexible method for signal extraction from single-cell RNA-seq data

Risso, D., Perraudeau, F., Gribkova, S., Dudoit, S., & Vert, J.-P. (2018) · Nature Communications

Single-cell and spatial transcriptomicsGene expression and cancer classification

Cited by 718

Consistency of random forests

Scornet, E., Biau, G., & Vert, J.-P. (2015) · The Annals of Statistics

Statistical Methods and InferenceStatistical Methods and Applications

Cited by 612

A statistical approach for inferring the 3D structure of the genome

Varoquaux, N., Ay, F., Noble, W. S., & Vert, J.-P. (2014) · Bioinformatics

Genomics and Chromatin DynamicsProtein Structure and Dynamics

Cited by 246

Guidelines for splicing analysis in molecular diagnosis derived from a set of 327 combined in silico/in vitro studies on BRCA1 and BRCA2 variants

Houdayer, C., Caux-Moncoutier, V., Krieger, S., Barrois, M., Bonnet, F., Bourdon, V., Bronner, M., Buisson, M., Coulet, F., Gaildrat, P., et al. (2012) · Human Mutation

BRCA gene mutations in cancerRNA Research and Splicing

Cited by 239

Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications

Van den Berge, K., Perraudeau, F., Soneson, C., Love, M. I., Risso, D., Vert, J.-P., Robinson, M. D., Dudoit, S., & Clement, L. (2018) · Genome Biology

Single-cell and spatial transcriptomicsGene expression and cancer classification

Cited by 228

A New Approach to Collaborative Filtering: Operator Estimation with Spectral Regularization

Abernethy, J., Bach, F., Evgeniou, T., & Vert, J.-P. (2008) · arXiv

Recommender Systems and TechniquesSparse and Compressive Sensing Techniques

Cited by 210

Gene regulation inference from single-cell RNA-seq data with linear differential equations and velocity inference

Aubin-Frankowski, P.-C., & Vert, J.-P. (2020) · Bioinformatics

Gene Regulatory Network AnalysisSingle-cell and spatial transcriptomics

Cited by 116

How will generative AI disrupt data science in drug discovery?

Vert, J.-P. (2023) · Nature Biotechnology

Computational Drug Discovery MethodsArtificial Intelligence in Healthcare and Education

Cited by 73

Deep embedding and alignment of protein sequences

Llinares-López, F., Berthet, Q., Blondel, M., Teboul, O., & Vert, J.-P. (2023) · Nature Methods

Genomics and Phylogenetic StudiesMachine Learning in Bioinformatics

Cited by 58