Davide Risso

Affiliations

Department of Statistical Sciences, University of Padova, Padova, Italy. davide.risso@unipd.it.

ORCID: 0000-0001-8508-5012

Publications (26)

Assessment of statistical methods from single cell, bulk RNA-seq, and metagenomics applied to microbiome data.

Genome biology

Avec: Matteo Calgaro , Chiara Romualdi , Levi Waldron , Davide Risso , Nicola Vitulo

Food labeling issues for severe food allergic patients.

The World Allergy Organization journal

Avec: Alessandro Fiocchi , Davide Risso , Audrey DunnGalvin , Sandra N González Díaz , Linda Monaci , Vincenzo Fierro , Ignacio J Ansotegui

Per-sample standardization and asymmetric winsorization lead to accurate clustering of RNA-seq expression profiles.

Bioinformatics (Oxford, England)

Avec: Davide Risso , Stefano Maria Pagnotta

Moderate intakes of soluble corn fibre or inulin do not cause gastrointestinal discomfort and are well tolerated in healthy children.

International journal of food sciences and nutrition

Avec: Davide Risso , Melissa Kaczmarczyk , Ieva Laurie , Eunice Mah , Traci M Blonquist , Linda Derrig , Kavita Karnik

Curated single cell multimodal landmark datasets for R/Bioconductor.

PLoS computational biology

Avec: Kelly B Eckenrode , Dario Righelli , Marcel Ramos , Ricard Argelaguet , Christophe Vanderaa , Ludwig Geistlinger , Aedin C Culhane , Laurent Gatto , Vincent Carey , Martin Morgan , Davide Risso , Levi Waldron

Cholesterol redistribution triggered by CYP46A1 gene therapy improves major hallmarks of Niemann-Pick type C disease but is not sufficient to halt neurodegeneration.

Biochimica et biophysica acta. Molecular basis of disease

Avec: Maria João Nunes , Andreia Neves Carvalho , Joana Reis , Daniela Costa , Miguel Moutinho , Joana Mateus , Rita Mendes de Almeida , Sara Brito , Daniela Risso , Sofia Nunes , Margarida Castro-Caldas , Maria João Gama , Cecília M P Rodrigues , Sara Xapelli , Maria José Diógenes , Nathalie Cartier , Farah Chali , Françoise Piguet , Elsa Rodrigues

benchdamic: benchmarking of differential abundance methods for microbiome data.

Bioinformatics (Oxford, England)

Avec: Matteo Calgaro , Chiara Romualdi , Davide Risso , Nicola Vitulo

Activation Profile of TAS2R2, the 26th Human Bitter Taste Receptor.

Molecular nutrition & food research

Avec: Tatjana Lang , Antonella Di Pizio , Davide Risso , Dennis Drayna , Maik Behrens

Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects.

Cell reports methods

Avec: Koen Van den Berge , Hsin-Jung Chou , Hector Roux de Bézieux , Kelly Street , Davide Risso , John Ngai , Sandrine Dudoit

Does sweetness exposure drive 'sweet tooth'?

The British journal of nutrition

Avec: David J Mela , Davide Risso

Improving replicability in single-cell RNA-Seq cell type discovery with Dune.

BMC bioinformatics

Avec: Hector Roux de Bézieux , Kelly Street , Stephan Fischer , Koen Van den Berge , Rebecca Chance , Davide Risso , Jesse Gillis , John Ngai , Elizabeth Purdom , Sandrine Dudoit

Alteration, Reduction and Taste Loss: Main Causes and Potential Implications on Dietary Habits.

Nutrients

Avec: Davide Risso , Dennis Drayna , Gabriella Morini

A spatially resolved brain region- and cell type-specific isoform atlas of the postnatal mouse brain.

Nature communications

Avec: Anoushka Joglekar , Andrey Prjibelski , Ahmed Mahfouz , Paul Collier , Susan Lin , Anna Katharina Schlusche , Jordan Marrocco , Stephen R Williams , Bettina Haase , Ashley Hayes , Jennifer G Chew , Neil I Weisenfeld , Man Ying Wong , Alexander N Stein , Simon A Hardwick , Toby Hunt , Qi Wang , Christoph Dieterich , Zachary Bent , Olivier Fedrigo , Steven A Sloan , Davide Risso , Erich D Jarvis , Paul Flicek , Wenjie Luo , Geoffrey S Pitt , Adam Frankish , August B Smit , M Elizabeth Ross , Hagen U Tilgner

Publisher Correction: A general and flexible method for signal extraction from single-cell RNA-seq data.

Nature communications

Avec: Davide Risso , Fanny Perraudeau , Svetlana Gribkova , Sandrine Dudoit , Jean-Philippe Vert

Rapid non-uniform adaptation to conformation-specific KRAS(G12C) inhibition.

Nature

Avec: Jenny Y Xue , Yulei Zhao , Jordan Aronowitz , Trang T Mai , Alberto Vides , Besnik Qeriqi , Dongsung Kim , Chuanchuan Li , Elisa de Stanchina , Linas Mazutis , Davide Risso , Piro Lito

Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia.

Science advances

Avec: David H Brann , Tatsuya Tsukahara , Caleb Weinreb , Marcela Lipovsek , Koen Van den Berge , Boying Gong , Rebecca Chance , Iain C Macaulay , Hsin-Jung Chou , Russell B Fletcher , Diya Das , Kelly Street , Hector Roux de Bezieux , Yoon-Gi Choi , Davide Risso , Sandrine Dudoit , Elizabeth Purdom , Jonathan Mill , Ralph Abi Hachem , Hiroaki Matsunami , Darren W Logan , Bradley J Goldstein , Matthew S Grubb , John Ngai , Sandeep Robert Datta

Potential Valorization of Hazelnut Shells through Extraction, Purification and Structural Characterization of Prebiotic Compounds: A Critical Review.

Foods (Basel, Switzerland)

Avec: Andrea Fuso , Davide Risso , Ginevra Rosso , Franco Rosso , Federica Manini , Ileana Manera , Augusta Caligiani

Oxysterols as Reliable Markers of Quality and Safety in Cholesterol Containing Food Ingredients and Products.

Frontiers in nutrition

Avec: Federico Canzoneri , Valerio Leoni , Ginevra Rosso , Davide Risso , Roberto Menta , Giuseppe Poli

Colistin Therapy, Survival and Renal Replacement Therapy in Burn Patients: A 10-Year Single-Center Cohort Study.

International journal of general medicine

Avec: Filippo Mariano , Valeria Malvasio , Daniela Risso , Nadia Depetris , Anna Pensa , Giacomo Fucale , Fabrizio Gennari , Luigi Biancone , Maurizio Stella

A global transcriptional atlas of the effect of acute sleep deprivation in the mouse frontal cortex.

iScience

Avec: Kaitlyn Ford , Elena Zuin , Dario Righelli , Elizabeth Medina , Hannah Schoch , Kristan Singletary , Christine Muheim , Marcos G Frank , Stephanie C Hicks , Davide Risso , Lucia Peixoto

Production of xylo-oligosaccharides (XOS) of tailored degree of polymerization from acetylated xylans through modelling of enzymatic hydrolysis.

Food research international (Ottawa, Ont.)

Avec: Andrea Fuso , Franco Rosso , Ginevra Rosso , Davide Risso , Ileana Manera , Augusta Caligiani

A Global Transcriptional Atlas of the Effect of Sleep Deprivation in the Mouse Frontal Cortex.

bioRxiv : the preprint server for biology

Avec: Kaitlyn Ford , Elena Zuin , Dario Righelli , Elizabeth Medina , Hannah Schoch , Kristan Singletary , Christine Muheim , Marcos G Frank , Stephanie C Hicks , Davide Risso , Lucia Peixoto

Use of Integra dermal regeneration template in burn patients: An Italian expert consensus Delphi study.

Burns : journal of the International Society for Burn Injuries

Avec: Giuseppe Giudice , Rosario Ranno , Giuseppe Lombardo , Antonio Di Lonardo , Giuseppe Perniciaro , Maria Alma Posadinu , Davide Melandri , Roberto D'Alessio , Franz Baruffaldi Preis , Marcello Zamparelli , Daniela Risso , Giuseppe Minunni , Enrico Pinzauti , Stefano Merelli , Maurizio Governa , Giulio Maggio , Pasquale Tedeschi

Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq.

Cell systems

Avec: Michael B Cole , Davide Risso , Allon Wagner , David DeTomaso , John Ngai , Elizabeth Purdom , Sandrine Dudoit , Nir Yosef

Epigenetic evolution and lineage histories of chronic lymphocytic leukaemia.

Nature

Avec: Federico Gaiti , Ronan Chaligne , Hongcang Gu , Ryan M Brand , Steven Kothen-Hill , Rafael C Schulman , Kirill Grigorev , Davide Risso , Kyu-Tae Kim , Alessandro Pastore , Kevin Y Huang , Alicia Alonso , Caroline Sheridan , Nathaniel D Omans , Evan Biederstedt , Kendell Clement , Lili Wang , Joshua A Felsenfeld , Erica B Bhavsar , Martin J Aryee , John N Allan , Richard Furman , Andreas Gnirke , Catherine J Wu , Alexander Meissner , Dan A Landau

An African-specific haplotype in MRGPRX4 is associated with menthol cigarette smoking.

PLoS genetics

Avec: Julia Kozlitina , Davide Risso , Katherine Lansu , Reid Hans Johnson Olsen , Eduardo Sainz , Donata Luiselli , Arnab Barik , Carlos Frigerio-Domingues , Luca Pagani , Stephen Wooding , Thomas Kirchner , Ray Niaura , Bryan Roth , Dennis Drayna

Réseau de co-auteurs

Sandrine Dudoit 5 collaborations

John Ngai 4 collaborations

Dario Righelli 3 collaborations

Daniela Risso 3 collaborations

Dennis Drayna 3 collaborations

Koen Van den Berge 3 collaborations

Kelly Street 3 collaborations

Elizabeth Purdom 3 collaborations

Ginevra Rosso 3 collaborations

Matteo Calgaro 2 collaborations

Chiara Romualdi 2 collaborations

Levi Waldron 2 collaborations

Nicola Vitulo 2 collaborations

Hsin-Jung Chou 2 collaborations

Hector Roux de Bézieux 2 collaborations

Rebecca Chance 2 collaborations

Andrea Fuso 2 collaborations

Franco Rosso 2 collaborations

Ileana Manera 2 collaborations

Augusta Caligiani 2 collaborations

Kaitlyn Ford 2 collaborations

Elena Zuin 2 collaborations

Elizabeth Medina 2 collaborations

Hannah Schoch 2 collaborations

Kristan Singletary 2 collaborations

Christine Muheim 2 collaborations

Marcos G Frank 2 collaborations

Stephanie C Hicks 2 collaborations

Lucia Peixoto 2 collaborations

Alessandro Fiocchi 1 collaboration

Audrey DunnGalvin 1 collaboration

Sandra N González Díaz 1 collaboration

Linda Monaci 1 collaboration

Vincenzo Fierro 1 collaboration

Ignacio J Ansotegui 1 collaboration

Stefano Maria Pagnotta 1 collaboration

Melissa Kaczmarczyk 1 collaboration

Ieva Laurie 1 collaboration

Eunice Mah 1 collaboration

Traci M Blonquist 1 collaboration

Linda Derrig 1 collaboration

Kavita Karnik 1 collaboration

Kelly B Eckenrode 1 collaboration

Marcel Ramos 1 collaboration

Ricard Argelaguet 1 collaboration

Christophe Vanderaa 1 collaboration

Ludwig Geistlinger 1 collaboration

Aedin C Culhane 1 collaboration

Laurent Gatto 1 collaboration

Vincent Carey 1 collaboration

Martin Morgan 1 collaboration

Maria João Nunes 1 collaboration

Andreia Neves Carvalho 1 collaboration

Joana Reis 1 collaboration

Daniela Costa 1 collaboration

Miguel Moutinho 1 collaboration

Joana Mateus 1 collaboration

Rita Mendes de Almeida 1 collaboration

Sara Brito 1 collaboration

Sofia Nunes 1 collaboration

Margarida Castro-Caldas 1 collaboration

Maria João Gama 1 collaboration

Cecília M P Rodrigues 1 collaboration

Sara Xapelli 1 collaboration

Maria José Diógenes 1 collaboration

Nathalie Cartier 1 collaboration

Farah Chali 1 collaboration

Françoise Piguet 1 collaboration

Elsa Rodrigues 1 collaboration

Tatjana Lang 1 collaboration

Antonella Di Pizio 1 collaboration

Maik Behrens 1 collaboration

David J Mela 1 collaboration

Stephan Fischer 1 collaboration

Jesse Gillis 1 collaboration

Gabriella Morini 1 collaboration

Anoushka Joglekar 1 collaboration

Andrey Prjibelski 1 collaboration

Ahmed Mahfouz 1 collaboration

Paul Collier 1 collaboration

Susan Lin 1 collaboration

Anna Katharina Schlusche 1 collaboration

Jordan Marrocco 1 collaboration

Stephen R Williams 1 collaboration

Bettina Haase 1 collaboration

Ashley Hayes 1 collaboration

Jennifer G Chew 1 collaboration

Neil I Weisenfeld 1 collaboration

Man Ying Wong 1 collaboration

Alexander N Stein 1 collaboration

Simon A Hardwick 1 collaboration

Toby Hunt 1 collaboration

Qi Wang 1 collaboration

Christoph Dieterich 1 collaboration

Zachary Bent 1 collaboration

Olivier Fedrigo 1 collaboration

Steven A Sloan 1 collaboration

Erich D Jarvis 1 collaboration

Paul Flicek 1 collaboration

Wenjie Luo 1 collaboration

Geoffrey S Pitt 1 collaboration

Adam Frankish 1 collaboration

August B Smit 1 collaboration

M Elizabeth Ross 1 collaboration

Hagen U Tilgner 1 collaboration

Fanny Perraudeau 1 collaboration

Svetlana Gribkova 1 collaboration

Jean-Philippe Vert 1 collaboration

Jenny Y Xue 1 collaboration

Yulei Zhao 1 collaboration

Jordan Aronowitz 1 collaboration

Trang T Mai 1 collaboration

Alberto Vides 1 collaboration

Besnik Qeriqi 1 collaboration

Dongsung Kim 1 collaboration

Chuanchuan Li 1 collaboration

Elisa de Stanchina 1 collaboration

Linas Mazutis 1 collaboration

Piro Lito 1 collaboration

David H Brann 1 collaboration

Tatsuya Tsukahara 1 collaboration

Caleb Weinreb 1 collaboration

Marcela Lipovsek 1 collaboration

Boying Gong 1 collaboration

Iain C Macaulay 1 collaboration

Russell B Fletcher 1 collaboration

Diya Das 1 collaboration

Hector Roux de Bezieux 1 collaboration

Yoon-Gi Choi 1 collaboration

Jonathan Mill 1 collaboration

Ralph Abi Hachem 1 collaboration

Hiroaki Matsunami 1 collaboration

Darren W Logan 1 collaboration

Bradley J Goldstein 1 collaboration

Matthew S Grubb 1 collaboration

Sandeep Robert Datta 1 collaboration

Federica Manini 1 collaboration

Federico Canzoneri 1 collaboration

Valerio Leoni 1 collaboration

Roberto Menta 1 collaboration

Giuseppe Poli 1 collaboration

Filippo Mariano 1 collaboration

Valeria Malvasio 1 collaboration

Nadia Depetris 1 collaboration

Anna Pensa 1 collaboration

Giacomo Fucale 1 collaboration

Fabrizio Gennari 1 collaboration

Luigi Biancone 1 collaboration

Maurizio Stella 1 collaboration

Giuseppe Giudice 1 collaboration

Rosario Ranno 1 collaboration

Giuseppe Lombardo 1 collaboration

Antonio Di Lonardo 1 collaboration

Giuseppe Perniciaro 1 collaboration

Maria Alma Posadinu 1 collaboration

Davide Melandri 1 collaboration

Roberto D'Alessio 1 collaboration

Franz Baruffaldi Preis 1 collaboration

Marcello Zamparelli 1 collaboration

Giuseppe Minunni 1 collaboration

Enrico Pinzauti 1 collaboration

Stefano Merelli 1 collaboration

Maurizio Governa 1 collaboration

Giulio Maggio 1 collaboration

Pasquale Tedeschi 1 collaboration

Michael B Cole 1 collaboration

Allon Wagner 1 collaboration

David DeTomaso 1 collaboration

Nir Yosef 1 collaboration

Federico Gaiti 1 collaboration

Ronan Chaligne 1 collaboration

Hongcang Gu 1 collaboration

Ryan M Brand 1 collaboration

Steven Kothen-Hill 1 collaboration

Rafael C Schulman 1 collaboration

Kirill Grigorev 1 collaboration

Kyu-Tae Kim 1 collaboration

Alessandro Pastore 1 collaboration

Kevin Y Huang 1 collaboration

Alicia Alonso 1 collaboration

Caroline Sheridan 1 collaboration

Nathaniel D Omans 1 collaboration

Evan Biederstedt 1 collaboration

Kendell Clement 1 collaboration

Lili Wang 1 collaboration

Joshua A Felsenfeld 1 collaboration

Erica B Bhavsar 1 collaboration

Martin J Aryee 1 collaboration

John N Allan 1 collaboration

Richard Furman 1 collaboration

Andreas Gnirke 1 collaboration

Catherine J Wu 1 collaboration

Alexander Meissner 1 collaboration

Dan A Landau 1 collaboration

Julia Kozlitina 1 collaboration

Katherine Lansu 1 collaboration

Reid Hans Johnson Olsen 1 collaboration

Eduardo Sainz 1 collaboration

Donata Luiselli 1 collaboration

Arnab Barik 1 collaboration

Carlos Frigerio-Domingues 1 collaboration

Luca Pagani 1 collaboration

Stephen Wooding 1 collaboration

Thomas Kirchner 1 collaboration

Ray Niaura 1 collaboration

Bryan Roth 1 collaboration