A general and flexible method for signal extraction from single-cell RNA-seq data
Risso, Davide, Perraudeau, Fanny, Gribkova, Svetlana, Dudoit, Sandrine, Vert, Jean-Philippe
Published in Nature communications (18.01.2018)
Published in Nature communications (18.01.2018)
Get full text
Journal Article
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
Servant, Nicolas, Varoquaux, Nelle, Lajoie, Bryan R, Viara, Eric, Chen, Chong-Jian, Vert, Jean-Philippe, Heard, Edith, Dekker, Job, Barillot, Emmanuel
Published in Genome Biology (01.12.2015)
Published in Genome Biology (01.12.2015)
Get full text
Journal Article
A statistical approach for inferring the 3D structure of the genome
Varoquaux, Nelle, Ay, Ferhat, Noble, William Stafford, Vert, Jean-Philippe
Published in Bioinformatics (Oxford, England) (15.06.2014)
Published in Bioinformatics (Oxford, England) (15.06.2014)
Get full text
Journal Article
Changes in correlation between promoter methylation and gene expression in cancer
Moarii, Matahi, Boeva, Valentina, Vert, Jean-Philippe, Reyal, Fabien
Published in BMC genomics (28.10.2015)
Published in BMC genomics (28.10.2015)
Get full text
Journal Article
Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications
Van den Berge, Koen, Perraudeau, Fanny, Soneson, Charlotte, Love, Michael I, Risso, Davide, Vert, Jean-Philippe, Robinson, Mark D, Dudoit, Sandrine, Clement, Lieven
Published in Genome Biology (26.02.2018)
Published in Genome Biology (26.02.2018)
Get full text
Journal Article
TIGRESS: Trustful Inference of Gene REgulation using Stability Selection
Haury, Anne-Claire, Mordelet, Fantine, Vera-Licona, Paola, Vert, Jean-Philippe
Published in BMC systems biology (22.11.2012)
Published in BMC systems biology (22.11.2012)
Get full text
Journal Article
AI-based mobile application to fight antibiotic resistance
Pascucci, Marco, Royer, Guilhem, Adamek, Jakub, Asmar, Mai Al, Aristizabal, David, Blanche, Laetitia, Bezzarga, Amine, Boniface-Chang, Guillaume, Brunner, Alex, Curel, Christian, Dulac-Arnold, Gabriel, Fakhri, Rasheed M., Malou, Nada, Nordon, Clara, Runge, Vincent, Samson, Franck, Sebastian, Ellen, Soukieh, Dena, Vert, Jean-Philippe, Ambroise, Christophe, Madoui, Mohammed-Amin
Published in Nature communications (19.02.2021)
Published in Nature communications (19.02.2021)
Get full text
Journal Article
A benchmark of computational pipelines for single-cell histone modification data
Raimundo, Félix, Prompsy, Pacôme, Vert, Jean-Philippe, Vallot, Céline
Published in Genome Biology (20.06.2023)
Published in Genome Biology (20.06.2023)
Get full text
Journal Article
LOTUS: A single- and multitask machine learning algorithm for the prediction of cancer driver genes
Collier, Olivier, Stoven, Véronique, Vert, Jean-Philippe
Published in PLoS computational biology (30.09.2019)
Published in PLoS computational biology (30.09.2019)
Get full text
Journal Article
Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
Ay, Ferhat, Bunnik, Evelien M, Varoquaux, Nelle, Bol, Sebastiaan M, Prudhomme, Jacques, Vert, Jean-Philippe, Noble, William Stafford, Le Roch, Karine G
Published in Genome research (01.06.2014)
Published in Genome research (01.06.2014)
Get full text
Journal Article
Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization
BOEVA, Valentina, ZINOVYEV, Andrei, BLEAKLEY, Kevin, VERT, Jean-Philippe, JANOUEIX-LEROSEY, Isabelle, DELATTRE, Olivier, BARILLOT, Emmanuel
Published in Bioinformatics (15.01.2011)
Published in Bioinformatics (15.01.2011)
Get full text
Journal Article
Transcriptional Programs Define Intratumoral Heterogeneity of Ewing Sarcoma at Single-Cell Resolution
Aynaud, Marie-Ming, Mirabeau, Olivier, Gruel, Nadege, Grossetête, Sandrine, Boeva, Valentina, Durand, Simon, Surdez, Didier, Saulnier, Olivier, Zaïdi, Sakina, Gribkova, Svetlana, Fouché, Aziz, Kairov, Ulykbek, Raynal, Virginie, Tirode, Franck, Grünewald, Thomas G.P., Bohec, Mylene, Baulande, Sylvain, Janoueix-Lerosey, Isabelle, Vert, Jean-Philippe, Barillot, Emmanuel, Delattre, Olivier, Zinovyev, Andrei
Published in Cell reports (Cambridge) (11.02.2020)
Published in Cell reports (Cambridge) (11.02.2020)
Get full text
Journal Article