Davide Risso

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Sandrine DudoitDivision of Biostatistics and Department of Statistics, University of California, BerkeleyVerified email at stat.berkeley.edu
Elizabeth PurdomAssociate Professor of Statistics, UC BerkeleyVerified email at stat.berkeley.edu
Kelly StreetAssistant Professor of Population and Public Health Sciences, Keck School of Medicine of USCVerified email at usc.edu
Terence P SpeedWalter & Eliza Hall Institute of Medical ResearchVerified email at wehi.edu.au
Koen Van den BergeJ&J Innovative MedicineVerified email at berkeley.edu
Diya DasGenentechVerified email at alumni.princeton.edu
Nir YosefAssociate Professor, Department of Systems Immunology, Weizmann Institute of ScienceVerified email at berkeley.edu
Stephanie C. HicksAssociate Professor, Johns Hopkins Bloomberg School of Public HealthVerified email at jhu.edu
Chiara RomualdiDipartimento Biologia, Università di PadovaVerified email at unipd.it
Levi WaldronCity University of New York Graduate School of Public Health and Health PolicyVerified email at sph.cuny.edu
Rebecca K. ChanceUS Department Veterans AffairsVerified email at alumni.brown.edu
Fanny PerraudeauBain & CompanyVerified email at bain.com
Hector Roux de BezieuxSenior Computational Biologist @ OwkinVerified email at berkeley.edu
Ludwig GeistlingerCenter for Computational Biomedicine, Harvard Medical SchoolVerified email at hms.harvard.edu
Lucia PeixotoAssociate Professor, Elon S. Floyd College of Medicine, Washington State UniversityVerified email at wsu.edu
Charlotte SonesonResearch Associate, FMI, BaselVerified email at fmi.ch
Jean-Philippe VertOwkin / PSL UniversityVerified email at owkin.com
Hsin-Jung "Tiffany" ChouAstellas Gene TherapiesVerified email at astellas.com
Dario RighelliAssistant Professor at University of Naples "Federico II"Verified email at unina.it
Aaron LunGenentech, Inc.Verified email at gene.com

Davide Risso

Department of Statistical Sciences, University of Padova, Italy

Verified email at unipd.it - Homepage

Statistics Bioinformatics Genomics


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Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics K Street, D Risso, RB Fletcher, D Das, J Ngai, N Yosef, E Purdom, ... BMC genomics 19, 1-16, 2018	2359	2018
Normalization of RNA-seq data using factor analysis of control genes or samples D Risso, J Ngai, TP Speed, S Dudoit Nature biotechnology 32 (9), 896-902, 2014	1987	2014
Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia DH Brann, T Tsukahara, C Weinreb, M Lipovsek, K Van den Berge, ... Science advances 6 (31), eabc5801, 2020	1255	2020
GC-content normalization for RNA-Seq data D Risso, K Schwartz, G Sherlock, S Dudoit BMC bioinformatics 12, 1-17, 2011	1148	2011
Orchestrating single-cell analysis with Bioconductor RA Amezquita, ATL Lun, E Becht, VJ Carey, LN Carpp, L Geistlinger, ... Nature methods 17 (2), 137-145, 2020	817	2020
A general and flexible method for signal extraction from single-cell RNA-seq data D Risso, F Perraudeau, S Gribkova, S Dudoit, JP Vert Nature communications 9 (1), 284, 2018	704	2018
Normalizing single-cell RNA sequencing data: challenges and opportunities CA Vallejos, D Risso, A Scialdone, S Dudoit, JC Marioni Nature methods 14 (6), 565-571, 2017	491	2017
Rapid non-uniform adaptation to conformation-specific KRAS (G12C) inhibition JY Xue, Y Zhao, J Aronowitz, TT Mai, A Vides, B Qeriqi, D Kim, C Li, ... Nature 577 (7790), 421-425, 2020	464	2020
A multimodal cell census and atlas of the mammalian primary motor cortex Principal manuscript editors, Analysis coordination, ... Nature 598 (7879), 86-102, 2021	381	2021
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex Z Yao, H Liu, F Xie, S Fischer, RS Adkins, AI Aldridge, SA Ament, ... Nature 598 (7879), 103-110, 2021	323*	2021
Epigenetic evolution and lineage histories of chronic lymphocytic leukaemia F Gaiti, R Chaligne, H Gu, RM Brand, S Kothen-Hill, RC Schulman, ... Nature 569 (7757), 576-580, 2019	253	2019
Deconstructing olfactory stem cell trajectories at single-cell resolution RB Fletcher, D Das, L Gadye, KN Street, A Baudhuin, A Wagner, MB Cole, ... Cell stem cell 20 (6), 817-830. e8, 2017	232	2017
Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications K Van den Berge, F Perraudeau, C Soneson, MI Love, D Risso, JP Vert, ... Genome Biology 19, 2018	228	2018
A spatially resolved brain region-and cell type-specific isoform atlas of the postnatal mouse brain A Joglekar, A Prjibelski, A Mahfouz, P Collier, S Lin, AK Schlusche, ... Nature communications 12 (1), 463, 2021	180	2021
Performance assessment and selection of normalization procedures for single-cell RNA-seq MB Cole, D Risso, A Wagner, D DeTomaso, J Ngai, E Purdom, S Dudoit, ... Cell systems 8 (4), 315-328. e8, 2019	168	2019
Deficiency of microRNA miR-34a expands cell fate potential in pluripotent stem cells YJ Choi, CP Lin, D Risso, S Chen, TA Kim, MH Tan, JB Li, Y Wu, C Chen, ... Science 355 (6325), eaag1927, 2017	167	2017
Complementary networks of cortical somatostatin interneurons enforce layer specific control A Naka, J Veit, B Shababo, RK Chance, D Risso, D Stafford, B Snyder, ... Elife 8, e43696, 2019	123	2019
Assessment of statistical methods from single cell, bulk RNA-seq, and metagenomics applied to microbiome data M Calgaro, C Romualdi, L Waldron, D Risso, N Vitulo Genome biology 21, 1-31, 2020	113*	2020
How data analysis affects power, reproducibility and biological insight of RNA-seq studies in complex datasets L Peixoto, D Risso, SG Poplawski, ME Wimmer, TP Speed, MA Wood, ... Nucleic acids research 43 (16), 7664-7674, 2015	111	2015
SpatialExperiment: infrastructure for spatially-resolved transcriptomics data in R using Bioconductor D Righelli, LM Weber, HL Crowell, B Pardo, L Collado-Torres, ... Bioinformatics 38 (11), 3128-3131, 2022	103	2022

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