Laurent Farinelli

Laurent Farinelli

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Laurent Farinelli

Laurent Farinelli

Publications by authors named "Laurent Farinelli"

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Small RNA-Omics for Virome Reconstruction and Antiviral Defense Characterization in Mixed Infections of Cultivated Solanum Plants.

Authors:
Silvia Turco Victor Golyaev Jonathan Seguin Céline Gilli Laurent Farinelli Thomas Boller Olivier Schumpp Mikhail M Pooggin

Mol Plant Microbe Interact 2018 07 10;31(7):707-723. Epub 2018 May 10.

1 Department of Environmental Sciences, Botany, Zurich-Basel Plant Science Center, University of Basel, Hebelstrasse 1, 4056 Basel, Switzerland.

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http://dx.doi.org/10.1094/MPMI-12-17-0301-RDOI Listing
July 2018

Ultra-low input transcriptomics reveal the spore functional content and phylogenetic affiliations of poorly studied arbuscular mycorrhizal fungi.

Authors:
Denis Beaudet Eric C H Chen Stephanie Mathieu Gokalp Yildirir Steve Ndikumana Yolande Dalpé Sylvie Séguin Laurent Farinelli Jason E Stajich Nicolas Corradi

DNA Res 2018 Apr;25(2):217-227

Department of Biology, University of Ottawa, Ottawa, Ontario K1N 6N5, Canada.

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http://dx.doi.org/10.1093/dnares/dsx051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5909441PMC
April 2018

Revisiting the Roles of Tobamovirus Replicase Complex Proteins in Viral Replication and Silencing Suppression.

Authors:
Nachelli Malpica-López Rajendran Rajeswaran Daria Beknazariants Jonathan Seguin Victor Golyaev Laurent Farinelli Mikhail M Pooggin

Mol Plant Microbe Interact 2018 01 15;31(1):125-144. Epub 2017 Nov 15.

1 University of Basel, Department of Environmental Sciences, Basel, Switzerland.

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http://dx.doi.org/10.1094/MPMI-07-17-0164-RDOI Listing
January 2018

Low number of fixed somatic mutations in a long-lived oak tree.

Authors:
Emanuel Schmid-Siegert Namrata Sarkar Christian Iseli Sandra Calderon Caroline Gouhier-Darimont Jacqueline Chrast Pietro Cattaneo Frédéric Schütz Laurent Farinelli Marco Pagni Michel Schneider Jérémie Voumard Michel Jaboyedoff Christian Fankhauser Christian S Hardtke Laurent Keller John R Pannell Alexandre Reymond Marc Robinson-Rechavi Ioannis Xenarios Philippe Reymond

Nat Plants 2017 Dec 4;3(12):926-929. Epub 2017 Dec 4.

Department of Plant Molecular Biology, University of Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1038/s41477-017-0066-9DOI Listing
December 2017

Roles of Non-Coding RNA in Sugarcane-Microbe Interaction.

Authors:
Flávia Thiebaut Cristian A Rojas Clícia Grativol Edmundo P da R Calixto Mariana R Motta Helkin G F Ballesteros Barbara Peixoto Berenice N S de Lima Lucas M Vieira Maria Emilia Walter Elvismary M de Armas Júlio O P Entenza Sergio Lifschitz Laurent Farinelli Adriana S Hemerly Paulo C G Ferreira

Noncoding RNA 2017 Dec 20;3(4). Epub 2017 Dec 20.

Laboratório de Biologia Molecular de Plantas, Instituto de Bioquímica Médica Leopoldo de Meis, Universidade Federal do Rio de Janeiro, Rio de Janeiro 21941-901, Brazil.

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http://dx.doi.org/10.3390/ncrna3040025DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5831913PMC
December 2017

Technical Insights into Highly Sensitive Isolation and Molecular Characterization of Fixed and Live Circulating Tumor Cells for Early Detection of Tumor Invasion.

Authors:
Sophie Laget Lucile Broncy Katia Hormigos Dalia M Dhingra Fatima BenMohamed Thierry Capiod Magne Osteras Laurent Farinelli Stephen Jackson Patrizia Paterlini-Bréchot

PLoS One 2017 6;12(1):e0169427. Epub 2017 Jan 6.

Unité INSERM U1151 (Eq 13), Faculté de Médecine Paris Descartes, Paris, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0169427PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5218415PMC
August 2017

Cell-free DNA testing of an extended range of chromosomal anomalies: clinical experience with 6,388 consecutive cases.

Authors:
Graziano Pescia Nicolas Guex Christian Iseli Liam Brennan Magne Osteras Ioannis Xenarios Laurent Farinelli Bernard Conrad

Genet Med 2017 02 30;19(2):169-175. Epub 2016 Jun 30.

Genesupport, Lausanne, Switzerland.

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http://dx.doi.org/10.1038/gim.2016.72DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5303761PMC
February 2017

Microbial Communities of Conducting and Respiratory Zones of Lung-Transplanted Patients.

Authors:
Marie Beaume Vladimir Lazarevic Thilo Köhler Nadia Gaïa Oriol Manuel John-David Aubert Loïc Baerlocher Laurent Farinelli Paola Gasche Jacques Schrenzel Christian van Delden

Front Microbiol 2016 7;7:1749. Epub 2016 Nov 7.

Transplant Infectious Diseases Unit, Geneva University Hospitals and Department of Microbiology and Molecular Medicine, University of Geneva Geneva, Switzerland.

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http://dx.doi.org/10.3389/fmicb.2016.01749DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5097918PMC
November 2016

MISIS-2: A bioinformatics tool for in-depth analysis of small RNAs and representation of consensus master genome in viral quasispecies.

Authors:
Jonathan Seguin Patricia Otten Loïc Baerlocher Laurent Farinelli Mikhail M Pooggin

J Virol Methods 2016 Jul 16;233:37-40. Epub 2016 Mar 16.

University of Basel, Department of Environmental Sciences, Botany, Hebelstrasse 1, 4056 Basel, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.jviromet.2016.03.005DOI Listing
July 2016

Unusual RNA plant virus integration in the soybean genome leads to the production of small RNAs.

Authors:
Guilherme Cordenonsi da Fonseca Luiz Felipe Valter de Oliveira Guilherme Loss de Morais Ricardo Vilela Abdelnor Alexandre Lima Nepomuceno Peter M Waterhouse Laurent Farinelli Rogerio Margis

Plant Sci 2016 May 11;246:62-69. Epub 2016 Feb 11.

Centro de Biotecnologia, Programa de Pós-Graduação em Biologia Celular e Molecular, Universidade Federal do Rio Grande do Sul, RS, Brazil; Departamento de Genética, Programa de Pós-Graduação em Genética e Biologia Molecular, Universidade Federal do Rio Grande do Sul, RS, Brazil. Electronic address:

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http://dx.doi.org/10.1016/j.plantsci.2016.01.011DOI Listing
May 2016

The Bee Microbiome: Impact on Bee Health and Model for Evolution and Ecology of Host-Microbe Interactions.

Authors:
Philipp Engel Waldan K Kwong Quinn McFrederick Kirk E Anderson Seth Michael Barribeau James Angus Chandler R Scott Cornman Jacques Dainat Joachim R de Miranda Vincent Doublet Olivier Emery Jay D Evans Laurent Farinelli Michelle L Flenniken Fredrik Granberg Juris A Grasis Laurent Gauthier Juliette Hayer Hauke Koch Sarah Kocher Vincent G Martinson Nancy Moran Monica Munoz-Torres Irene Newton Robert J Paxton Eli Powell Ben M Sadd Paul Schmid-Hempel Regula Schmid-Hempel Se Jin Song Ryan S Schwarz Dennis vanEngelsdorp Benjamin Dainat

mBio 2016 Apr 26;7(2):e02164-15. Epub 2016 Apr 26.

Agroscope, Swiss Bee Research Centre, Bern, Switzerland Bee Health Extension Service, Apiservice, Bern , Switzerland

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http://dx.doi.org/10.1128/mBio.02164-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4850275PMC
April 2016

Corrigendum: Domains of genome-wide gene expression dysregulation in Down's syndrome.

Authors:
Audrey Letourneau Federico A Santoni Ximena Bonilla M Reza Sailani David Gonzalez Jop Kind Claire Chevalier Robert Thurman Richard S Sandstrom Youssef Hibaoui Marco Garieri Konstantin Popadin Emilie Falconnet Maryline Gagnebin Corinne Gehrig Anne Vannier Michel Guipponi Laurent Farinelli Daniel Robyr Eugenia Migliavacca Christelle Borel Samuel Deutsch Anis Feki John A Stamatoyannopoulos Yann Herault Bas van Steensel Roderic Guigo Stylianos E Antonarakis

Nature 2016 Mar 2;531(7594):400. Epub 2015 Dec 2.

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http://dx.doi.org/10.1038/nature16135DOI Listing
March 2016

Field Trial and Molecular Characterization of RNAi-Transgenic Tomato Plants That Exhibit Resistance to Tomato Yellow Leaf Curl Geminivirus.

Authors:
Alejandro Fuentes Natacha Carlos Yoslaine Ruiz Danay Callard Yadira Sánchez María Elena Ochagavía Jonathan Seguin Nachelli Malpica-López Thomas Hohn Maria Rita Lecca Rosabel Pérez Vivian Doreste Hubert Rehrauer Laurent Farinelli Merardo Pujol Mikhail M Pooggin

Mol Plant Microbe Interact 2016 Mar 11;29(3):197-209. Epub 2016 Feb 11.

2 University of Basel, Department of Environmental Sciences, Botany, Hebelstrasse 1, 4056 Basel, Switzerland;

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http://dx.doi.org/10.1094/MPMI-08-15-0181-RDOI Listing
March 2016

Evidence for the sexual origin of heterokaryosis in arbuscular mycorrhizal fungi.

Authors:
Jeanne Ropars Kinga Sędzielewska Toro Jessica Noel Adrian Pelin Philippe Charron Laurent Farinelli Timea Marton Manuela Krüger Jörg Fuchs Andreas Brachmann Nicolas Corradi

Nat Microbiol 2016 03 21;1(6):16033. Epub 2016 Mar 21.

Canadian Institute for Advanced Research, Department of Biology, University of Ottawa, Ottawa, Ontario, Canada.

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http://www.nature.com/articles/nmicrobiol201633
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http://dx.doi.org/10.1038/nmicrobiol.2016.33DOI Listing
March 2016

Genome analyses suggest the presence of polyploidy and recent human-driven expansions in eight global populations of the honeybee pathogen Nosema ceranae.

Authors:
Adrian Pelin Mohammed Selman Stéphane Aris-Brosou Laurent Farinelli Nicolas Corradi

Environ Microbiol 2015 Nov 11;17(11):4443-58. Epub 2015 Jun 11.

Canadian Institute for Advanced Research, Department of Biology; University of Ottawa, Ottawa, ON, Canada.

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http://dx.doi.org/10.1111/1462-2920.12883DOI Listing
November 2015

Embryonic gene expression of Coregonus palaea (whitefish) under pathogen stress as analyzed by high-throughput RNA-sequencing.

Authors:
Laetitia G E Wilkins Emily S Clark Laurent Farinelli Claus Wedekind Luca Fumagalli

Fish Shellfish Immunol 2015 Nov 2;47(1):130-40. Epub 2015 Sep 2.

Department of Ecology and Evolution, Biophore, University of Lausanne, 1015 Lausanne, Switzerland.

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http://dx.doi.org/10.1016/j.fsi.2015.08.035DOI Listing
November 2015

Sequencing and characterizing the genome of Estrella lausannensis as an undergraduate project: training students and biological insights.

Authors:
Claire Bertelli Sébastien Aeby Bérénice Chassot James Clulow Olivier Hilfiker Samuel Rappo Sébastien Ritzmann Paolo Schumacher Céline Terrettaz Paola Benaglio Laurent Falquet Laurent Farinelli Walid H Gharib Alexander Goesmann Keith Harshman Burkhard Linke Ryo Miyazaki Carlo Rivolta Marc Robinson-Rechavi Jan Roelof van der Meer Gilbert Greub

Front Microbiol 2015 19;6:101. Epub 2015 Feb 19.

Center for Research on Intracellular Bacteria, Institute of Microbiology, University Hospital Center and University of Lausanne Lausanne, Switzerland.

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http://dx.doi.org/10.3389/fmicb.2015.00101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333871PMC
March 2015

bacterial infection drives the expression dynamics of microRNAs and their isomiRs.

Authors:
Katherine J Siddle Ludovic Tailleux Matthieu Deschamps Yong-Hwee Eddie Loh Cécile Deluen Brigitte Gicquel Christophe Antoniewski Luis B Barreiro Laurent Farinelli Lluís Quintana-Murci

PLoS Genet 2015 Mar 20;11(3):e1005064. Epub 2015 Mar 20.

Institut Pasteur, Unit of Human Evolutionary Genetics, Paris, France; Centre National de la Recherche Scientifique, Paris, France.

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http://dx.doi.org/10.1371/journal.pgen.1005064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4368565PMC
March 2015

Interactions of Rice tungro bacilliform pararetrovirus and its protein P4 with plant RNA-silencing machinery.

Authors:
Rajendran Rajeswaran Victor Golyaev Jonathan Seguin Anna S Zvereva Laurent Farinelli Mikhail M Pooggin

Mol Plant Microbe Interact 2014 Dec;27(12):1370-8

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http://dx.doi.org/10.1094/MPMI-07-14-0201-RDOI Listing
December 2014

De novo reconstruction of consensus master genomes of plant RNA and DNA viruses from siRNAs.

Authors:
Jonathan Seguin Rajendran Rajeswaran Nachelli Malpica-López Robert R Martin Kristin Kasschau Valerian V Dolja Patricia Otten Laurent Farinelli Mikhail M Pooggin

PLoS One 2014 11;9(2):e88513. Epub 2014 Feb 11.

University of Basel, Department of Environmental Sciences, Institute of Botany, Basel, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0088513PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3921208PMC
October 2014

Evasion of short interfering RNA-directed antiviral silencing in Musa acuminata persistently infected with six distinct banana streak pararetroviruses.

Authors:
Rajendran Rajeswaran Jonathan Seguin Matthieu Chabannes Pierre-Olivier Duroy Nathalie Laboureau Laurent Farinelli Marie-Line Iskra-Caruana Mikhail M Pooggin

J Virol 2014 Oct 23;88(19):11516-28. Epub 2014 Jul 23.

University of Basel, Department of Environmental Sciences, Botany, Basel, Switzerland

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http://jvi.asm.org/content/88/19/11516.full.pdf
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http://jvi.asm.org/cgi/doi/10.1128/JVI.01496-14
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http://dx.doi.org/10.1128/JVI.01496-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4178793PMC
October 2014

Comprehensive metagenomic analysis of glioblastoma reveals absence of known virus despite antiviral-like type I interferon gene response.

Authors:
Érika Cosset Tom J Petty Valérie Dutoit Samuel Cordey Ismael Padioleau Patricia Otten-Hernandez Laurent Farinelli Laurent Kaiser Pascale Bruyère-Cerdan Diderik Tirefort Soraya Amar El-Dusouqui Zeynab Nayernia Karl-Heinz Krause Evgeny M Zdobnov Pierre-Yves Dietrich Emmanuel Rigal Olivier Preynat-Seauve

Int J Cancer 2014 Sep 8;135(6):1381-9. Epub 2014 May 8.

Laboratory of Immunohematology, Hematology Unit, Department of Genetic and Laboratory Medicine, Geneva University Hospitals, University of Geneva, Switzerland.

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http://dx.doi.org/10.1002/ijc.28670DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4235296PMC
September 2014

Genome-wide identification of microRNA and siRNA responsive to endophytic beneficial diazotrophic bacteria in maize.

Authors:
Flávia Thiebaut Cristian A Rojas Clícia Grativol Mariana Romeiro Motta Tauan Vieira Michael Regulski Robert A Martienssen Laurent Farinelli Adriana S Hemerly Paulo C G Ferreira

BMC Genomics 2014 Sep 6;15:766. Epub 2014 Sep 6.

Laboratório de Biologia Molecular de Plantas, Instituto de Bioquímica Médica Leopoldo de Meis, Universidade Federal do Rio de Janeiro, Cidade Universitária, Avenida Carlos Chagas Filho, 373, CCS, Bl,L-29ss, Rio de Janeiro RJ 21941-599, Brazil.

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http://dx.doi.org/10.1186/1471-2164-15-766DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4168055PMC
September 2014

Whole-Genome Shotgun Sequence of Arthrospira platensis Strain Paraca, a Cultivated and Edible Cyanobacterium.

Authors:
Francois Lefort Gautier Calmin Julien Crovadore Jacques Falquet Jean-Pierre Hurni Magne Osteras Francois Haldemann Laurent Farinelli

Genome Announc 2014 Aug 7;2(4). Epub 2014 Aug 7.

Fasteris SA, Plan-les-Ouates, Switzerland.

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http://dx.doi.org/10.1128/genomeA.00751-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4125771PMC
August 2014

Sugarcane genome sequencing by methylation filtration provides tools for genomic research in the genus Saccharum.

Authors:
Clícia Grativol Michael Regulski Marcelo Bertalan W Richard McCombie Felipe Rodrigues da Silva Adhemar Zerlotini Neto Renato Vicentini Laurent Farinelli Adriana Silva Hemerly Robert A Martienssen Paulo Cavalcanti Gomes Ferreira

Plant J 2014 Jul 17;79(1):162-72. Epub 2014 Jun 17.

Laboratório de Biologia Molecular de Plantas, Instituto de Bioquímica Médica Leopoldo de Meis, Universidade Federal do Rio de Janeiro, Av. Carlos Chagas Filho 373, CCS, Bl.L-29, Cidade Universitária, Rio de Janeiro, 21941-599, RJ, Brazil.

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http://dx.doi.org/10.1111/tpj.12539DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4458261PMC
July 2014

Genome and transcriptome sequencing identifies breeding targets in the orphan crop tef (Eragrostis tef).

Authors:
Gina Cannarozzi Sonia Plaza-Wüthrich Korinna Esfeld Stéphanie Larti Yi Song Wilson Dejene Girma Edouard de Castro Solomon Chanyalew Regula Blösch Laurent Farinelli Eric Lyons Michel Schneider Laurent Falquet Cris Kuhlemeier Kebebew Assefa Zerihun Tadele

BMC Genomics 2014 Jul 9;15:581. Epub 2014 Jul 9.

University of Bern, Institute of Plant Sciences, Altenbergrain 21, Bern CH-3013, Switzerland.

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http://dx.doi.org/10.1186/1471-2164-15-581DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4119204PMC
July 2014

Implication of sperm RNAs in transgenerational inheritance of the effects of early trauma in mice.

Authors:
Katharina Gapp Ali Jawaid Peter Sarkies Johannes Bohacek Pawel Pelczar Julien Prados Laurent Farinelli Eric Miska Isabelle M Mansuy

Nat Neurosci 2014 May 13;17(5):667-9. Epub 2014 Apr 13.

Brain Research Institute, Neuroscience Center Zürich, University of Zürich and Swiss Federal Institute of Technology, Zürich, Switzerland.

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http://dx.doi.org/10.1038/nn.3695DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333222PMC
May 2014

Domains of genome-wide gene expression dysregulation in Down's syndrome.

Authors:
Audrey Letourneau Federico A Santoni Ximena Bonilla M Reza Sailani David Gonzalez Jop Kind Claire Chevalier Robert Thurman Richard S Sandstrom Youssef Hibaoui Marco Garieri Konstantin Popadin Emilie Falconnet Maryline Gagnebin Corinne Gehrig Anne Vannier Michel Guipponi Laurent Farinelli Daniel Robyr Eugenia Migliavacca Christelle Borel Samuel Deutsch Anis Feki John A Stamatoyannopoulos Yann Herault Bas van Steensel Roderic Guigo Stylianos E Antonarakis

Nature 2014 Apr;508(7496):345-50

1] Department of Genetic Medicine and Development, University of Geneva Medical School, University Hospitals of Geneva, 1211 Geneva, Switzerland [2] iGE3 Institute of Genetics and Genomics of Geneva, 1211 Geneva, Switzerland.

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http://dx.doi.org/10.1038/nature13200DOI Listing
April 2014

A genomic perspective on a new bacterial genus and species from the Alcaligenaceae family, Basilea psittacipulmonis.

Authors:
Katrine L Whiteson David Hernandez Vladimir Lazarevic Nadia Gaia Laurent Farinelli Patrice François Paola Pilo Joachim Frey Jacques Schrenzel

BMC Genomics 2014 Mar 1;15:169. Epub 2014 Mar 1.

Genomic Research Laboratory, Department of Internal Medicine, Service of Infectious Diseases, Geneva University Hospitals, Gabrielle-Perret-Gentil 4, CH-1211 Geneva 14, Switzerland.

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http://dx.doi.org/10.1186/1471-2164-15-169DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4028982PMC
March 2014

Duality of the murine CD8 compartment.

Authors:
Raphaël Genolet Julie Leignadier Magne Østerås Laurent Farinelli Brian J Stevenson Immanuel F Luescher

Proc Natl Acad Sci U S A 2014 Mar 4;111(11):E1007-15. Epub 2014 Mar 4.

Ludwig Centre for Cancer Research, University of Lausanne, 1066 Epalinges, Switzerland.

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http://dx.doi.org/10.1073/pnas.1317847111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3964049PMC
March 2014

Extreme diversification of the mating type-high-mobility group (MATA-HMG) gene family in a plant-associated arbuscular mycorrhizal fungus.

Authors:
Rohan Riley Philippe Charron Alexander Idnurm Laurent Farinelli Yolande Dalpé Francis Martin Nicolas Corradi

New Phytol 2014 Jan 27;201(1):254-68. Epub 2013 Aug 27.

Canadian Institute for Advanced Research, Department of Biology, University of Ottawa, Ottawa, ON, K1N 6N5, Canada.

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http://dx.doi.org/10.1111/nph.12462DOI Listing
January 2014

De novo finished 2.8 Mbp Staphylococcus aureus genome assembly from 100 bp short and long range paired-end reads.

Authors:
David Hernandez Ryan Tewhey Jean-Baptiste Veyrieras Laurent Farinelli Magne Østerås Patrice François Jacques Schrenzel

Bioinformatics 2014 Jan 15;30(1):40-9. Epub 2013 Oct 15.

Genomic Research Laboratory, Infectious Diseases Service, Geneva University Hospitals, 1211 Geneva 4, Switzerland, Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, CA 92037, USA, BioMérieux, Data and Knowledge Laboratory, 69280 Marcy l'Etoile, France and Fasteris SA, PO Box 28, 1228 Plan-les-Ouates, Switzerland.

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http://dx.doi.org/10.1093/bioinformatics/btt590DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6280916PMC
January 2014

MISIS: a bioinformatics tool to view and analyze maps of small RNAs derived from viruses and genomic loci generating multiple small RNAs.

Authors:
Jonathan Seguin Patricia Otten Loïc Baerlocher Laurent Farinelli Mikhail M Pooggin

J Virol Methods 2014 Jan 14;195:120-2. Epub 2013 Oct 14.

Zürich-Basel Plant Science Center, University of Basel, Department of Environmental Sciences, Botany, Hebelstrasse 1, 4056 Basel, Switzerland; Fasteris SA, Ch. du Pont-du-Centenaire 109, 1228 Plan-les-Ouates, Switzerland.

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http://dx.doi.org/10.1016/j.jviromet.2013.10.013DOI Listing
January 2014

Analysis of the Elodea nuttallii transcriptome in response to mercury and cadmium pollution: development of sensitive tools for rapid ecotoxicological testing.

Authors:
Nicole Regier Loïc Baerlocher Martin Münsterkötter Laurent Farinelli Claudia Cosio

Environ Sci Technol 2013 Aug 25;47(15):8825-34. Epub 2013 Jul 25.

Institut F.-A. Forel, University of Geneva , 10 route de Suisse, CP416, 1290 Versoix, Switzerland.

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http://dx.doi.org/10.1021/es401082hDOI Listing
August 2013

Re: Errors in the editorial by Christensen and Giovannoni [HERVs: have we been here before? MSJ 18(12) 1670-1672].

Authors:
Hervé Perron Raphaëlle Germi Corinne Bernard Marta Garcia-Montojo Cécile Deluen Laurent Farinelli Raphaël Faucard Francisco Veas Ilias Stefas Babs O Fabriek Jack Van-Horssen Paul Vander-Valk Claire Gerdil Roberta Mancuso Marina Saresella Mario Clerici Sébastien Marcel Alain Creange Rosella Cavaretta Domenico Caputo Giannina Arru Patrice Morand Alois B Lang Stefano Sotgiu Klemens Ruprecht Peter Rieckmann Pablo Villoslada Michel Chofflon Jose Boucraut Jean Pelletier Hans-Peter Hartung

Mult Scler 2013 May;19(6):831-2

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http://journals.sagepub.com/doi/10.1177/1352458513485150
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http://dx.doi.org/10.1177/1352458513485150DOI Listing
May 2013

Extremely reduced levels of heterozygosity in the vertebrate pathogen Encephalitozoon cuniculi.

Authors:
Mohammed Selman Bohumil Sak Martin Kváč Laurent Farinelli Louis M Weiss Nicolas Corradi

Eukaryot Cell 2013 Apr 2;12(4):496-502. Epub 2013 Feb 2.

Canadian Institute for Advanced Research, Department of Biology, University of Ottawa, Ottawa, Ontario, Canada.

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http://ec.asm.org/lookup/doi/10.1128/EC.00307-12
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http://dx.doi.org/10.1128/EC.00307-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3623448PMC
April 2013

Whole-Genome Shotgun Sequence of Pseudomonas viridiflava, a Bacterium Species Pathogenic to Ararabidopsis thaliana.

Authors:
Francois Lefort Gautier Calmin Julien Crovadore Magne Osteras Laurent Farinelli

Genome Announc 2013 Jan 24;1(1). Epub 2013 Jan 24.

Plants and Pathogens Group, Research Institute Earth Nature and Environment, hepia, University of Applied Sciences of Western Switzerland, Jussy, Switzerland.

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http://dx.doi.org/10.1128/genomeA.00116-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3569360PMC
January 2013

Human endogenous retrovirus type W envelope expression in blood and brain cells provides new insights into multiple sclerosis disease.

Authors:
Hervé Perron Raphaëlle Germi Corinne Bernard Marta Garcia-Montojo Cécile Deluen Laurent Farinelli Raphaël Faucard Francisco Veas Ilias Stefas Babs O Fabriek Jack Van-Horssen Paul Van-der-Valk Claire Gerdil Roberta Mancuso Marina Saresella Mario Clerici Sébastien Marcel Alain Creange Rosella Cavaretta Domenico Caputo Giannina Arru Patrice Morand Alois B Lang Stefano Sotgiu Klemens Ruprecht Peter Rieckmann Pablo Villoslada Michel Chofflon Jose Boucraut Jean Pelletier Hans-Peter Hartung

Mult Scler 2012 Dec 28;18(12):1721-36. Epub 2012 Mar 28.

GeNeuro, Geneva, Switzerland.

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http://dx.doi.org/10.1177/1352458512441381DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3573672PMC
December 2012

Global alteration of microRNAs and transposon-derived small RNAs in cotton (Gossypium hirsutum) during Cotton leafroll dwarf polerovirus (CLRDV) infection.

Authors:
Elisson Romanel Tatiane F Silva Régis L Corrêa Laurent Farinelli Jennifer S Hawkins Carlos E G Schrago Maite F S Vaslin

Plant Mol Biol 2012 Nov 18;80(4-5):443-60. Epub 2012 Sep 18.

Departamento de Genética, Instituto de Biologia, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.

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http://dx.doi.org/10.1007/s11103-012-9959-1DOI Listing
November 2012

Highly diverse TCRα chain repertoire of pre-immune CD8⁺ T cells reveals new insights in gene recombination.

Authors:
Raphael Genolet Brian J Stevenson Laurent Farinelli Magne Osterås Immanuel F Luescher

EMBO J 2012 Nov;31(21):4247-8

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http://emboj.embopress.org/cgi/doi/10.1038/emboj.2012.277
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http://dx.doi.org/10.1038/emboj.2012.277DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3492736PMC
November 2012

Primary and secondary siRNAs in geminivirus-induced gene silencing.

Authors:
Michael Aregger Basanta K Borah Jonathan Seguin Rajendran Rajeswaran Ekaterina G Gubaeva Anna S Zvereva David Windels Franck Vazquez Todd Blevins Laurent Farinelli Mikhail M Pooggin

PLoS Pathog 2012 Sep 27;8(9):e1002941. Epub 2012 Sep 27.

Institute of Botany, University of Basel, Basel, Switzerland.

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http://dx.doi.org/10.1371/journal.ppat.1002941DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3460622PMC
September 2012

Deep-sequencing protocols influence the results obtained in small-RNA sequencing.

Authors:
Joern Toedling Nicolas Servant Constance Ciaudo Laurent Farinelli Olivier Voinnet Edith Heard Emmanuel Barillot

PLoS One 2012 27;7(2):e32724. Epub 2012 Feb 27.

Institut Curie, Paris, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0032724PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287988PMC
August 2012

Computational identification and analysis of novel sugarcane microRNAs.

Authors:
Flávia Thiebaut Clícia Grativol Mariana Carnavale-Bottino Cristian Antonio Rojas Milos Tanurdzic Laurent Farinelli Robert A Martienssen Adriana Silva Hemerly Paulo Cavalcanti Gomes Ferreira

BMC Genomics 2012 Jul 2;13:290. Epub 2012 Jul 2.

Laboratorio de Biologia Molecular de Plantas, Instituto de Bioquímica Médica, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, Brazil.

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http://dx.doi.org/10.1186/1471-2164-13-290DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3464620PMC
July 2012

Gain and loss of multiple functionally related, horizontally transferred genes in the reduced genomes of two microsporidian parasites.

Authors:
Jean-François Pombert Mohammed Selman Fabien Burki Floyd T Bardell Laurent Farinelli Leellen F Solter Douglas W Whitman Louis M Weiss Nicolas Corradi Patrick J Keeling

Proc Natl Acad Sci U S A 2012 Jul 16;109(31):12638-43. Epub 2012 Jul 16.

Department of Botany, Canadian Institute for Advanced Research, University of British Columbia, Vancouver, BC V6T 1Z4, Canada.

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http://dx.doi.org/10.1073/pnas.1205020109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3412028PMC
July 2012

Highly diverse TCRα chain repertoire of pre-immune CD8⁺ T cells reveals new insights in gene recombination.

Authors:
Raphael Genolet Brian J Stevenson Laurent Farinelli Magne Osterås Immanuel F Luescher

EMBO J 2012 Apr 28;31(7):1666-78. Epub 2012 Feb 28.

Ludwig Centre for Cancer Research, University of Lausanne, Epalinges, Switzerland.

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http://dx.doi.org/10.1038/emboj.2012.48DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3321212PMC
April 2012

Analysis of the salivary microbiome using culture-independent techniques.

Authors:
Vladimir Lazarevic Katrine Whiteson Nadia Gaïa Yann Gizard David Hernandez Laurent Farinelli Magne Osterås Patrice François Jacques Schrenzel

J Clin Bioinforma 2012 Feb 2;2. Epub 2012 Feb 2.

Genomic Research Laboratory, Division of Infectious Diseases, Geneva University Hospitals, Rue Gabrielle-Perret-Gentil 4, CH-1211 Geneva 14, Switzerland.

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http://dx.doi.org/10.1186/2043-9113-2-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3296672PMC
February 2012

Whole-exome sequencing identifies somatic mutations of BCOR in acute myeloid leukemia with normal karyotype.

Authors:
Vera Grossmann Enrico Tiacci Antony B Holmes Alexander Kohlmann Maria Paola Martelli Wolfgang Kern Ariele Spanhol-Rosseto Hans-Ulrich Klein Martin Dugas Sonja Schindela Vladimir Trifonov Susanne Schnittger Claudia Haferlach Renato Bassan Victoria A Wells Orietta Spinelli Joseph Chan Roberta Rossi Stefano Baldoni Luca De Carolis Katharina Goetze Hubert Serve Rudolf Peceny Karl-Anton Kreuzer Daniel Oruzio Giorgina Specchia Francesco Di Raimondo Francesco Fabbiano Marco Sborgia Arcangelo Liso Laurent Farinelli Alessandro Rambaldi Laura Pasqualucci Raul Rabadan Torsten Haferlach Brunangelo Falini

Blood 2011 Dec 19;118(23):6153-63. Epub 2011 Oct 19.

MLL Munich Leukemia Laboratory, Munich, Germany.

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http://www.bloodjournal.org/cgi/doi/10.1182/blood-2011-07-36
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December 2011

Rhinovirus genome variation during chronic upper and lower respiratory tract infections.

Authors:
Caroline Tapparel Samuel Cordey Thomas Junier Laurent Farinelli Sandra Van Belle Paola M Soccal John-David Aubert Evgeny Zdobnov Laurent Kaiser

PLoS One 2011 21;6(6):e21163. Epub 2011 Jun 21.

Laboratory of Virology, Division of Infectious Diseases and Division of Laboratory Medicine, University of Geneva Hospitals, Geneva, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0021163PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3119694PMC
November 2011

The genome of Tetranychus urticae reveals herbivorous pest adaptations.

Authors:
Miodrag Grbić Thomas Van Leeuwen Richard M Clark Stephane Rombauts Pierre Rouzé Vojislava Grbić Edward J Osborne Wannes Dermauw Phuong Cao Thi Ngoc Félix Ortego Pedro Hernández-Crespo Isabel Diaz Manuel Martinez Maria Navajas Élio Sucena Sara Magalhães Lisa Nagy Ryan M Pace Sergej Djuranović Guy Smagghe Masatoshi Iga Olivier Christiaens Jan A Veenstra John Ewer Rodrigo Mancilla Villalobos Jeffrey L Hutter Stephen D Hudson Marisela Velez Soojin V Yi Jia Zeng Andre Pires-daSilva Fernando Roch Marc Cazaux Marie Navarro Vladimir Zhurov Gustavo Acevedo Anica Bjelica Jeffrey A Fawcett Eric Bonnet Cindy Martens Guy Baele Lothar Wissler Aminael Sanchez-Rodriguez Luc Tirry Catherine Blais Kristof Demeestere Stefan R Henz T Ryan Gregory Johannes Mathieu Lou Verdon Laurent Farinelli Jeremy Schmutz Erika Lindquist René Feyereisen Yves Van de Peer

Nature 2011 Nov 23;479(7374):487-92. Epub 2011 Nov 23.

Department of Biology, The University of Western Ontario, London N6A 5B7, Canada.

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http://dx.doi.org/10.1038/nature10640DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4856440PMC
November 2011

microRNA-34c is a novel target to treat dementias.

Authors:
Athanasios Zovoilis Hope Y Agbemenyah Roberto C Agis-Balboa Roman M Stilling Dieter Edbauer Pooja Rao Laurent Farinelli Ivana Delalle Andrea Schmitt Peter Falkai Sanaz Bahari-Javan Susanne Burkhardt Farahnaz Sananbenesi Andre Fischer

EMBO J 2011 Sep 23;30(20):4299-308. Epub 2011 Sep 23.

Laboratory for Aging and Cognitive Diseases, European Neuroscience Institute, Göttingen, Germany.

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http://dx.doi.org/10.1038/emboj.2011.327DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3199394PMC
September 2011

Ultra-deep sequencing of foraminiferal microbarcodes unveils hidden richness of early monothalamous lineages in deep-sea sediments.

Authors:
Béatrice Lecroq Franck Lejzerowicz Dipankar Bachar Richard Christen Philippe Esling Loïc Baerlocher Magne Østerås Laurent Farinelli Jan Pawlowski

Proc Natl Acad Sci U S A 2011 Aug 25;108(32):13177-82. Epub 2011 Jul 25.

Department of Genetics and Evolution, University of Geneva, CH-1211 Geneva 4, Switzerland.

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http://www.pnas.org/lookup/doi/10.1073/pnas.1018426108
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http://dx.doi.org/10.1073/pnas.1018426108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3156150PMC
August 2011

Acquisition of an animal gene by microsporidian intracellular parasites.

Authors:
Mohammed Selman Jean-François Pombert Leellen Solter Laurent Farinelli Louis M Weiss Patrick Keeling Nicolas Corradi

Curr Biol 2011 Aug;21(15):R576-7

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http://dx.doi.org/10.1016/j.cub.2011.06.017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3751409PMC
August 2011

Profile of small interfering RNAs from cotton plants infected with the polerovirus Cotton leafroll dwarf virus.

Authors:
Tatiane F Silva Elisson A C Romanel Roberto R S Andrade Laurent Farinelli Magne Østerås Cécile Deluen Régis L Corrêa Carlos E G Schrago Maite F S Vaslin

BMC Mol Biol 2011 Aug 24;12:40. Epub 2011 Aug 24.

Laboratório de Virologia Molecular Vegetal, Depto, Virologia, IMPPG, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brasil.

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http://dx.doi.org/10.1186/1471-2199-12-40DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3189115PMC
August 2011

Massive production of small RNAs from a non-coding region of Cauliflower mosaic virus in plant defense and viral counter-defense.

Authors:
Todd Blevins Rajendran Rajeswaran Michael Aregger Basanta K Borah Mikhail Schepetilnikov Loïc Baerlocher Laurent Farinelli Frederick Meins Thomas Hohn Mikhail M Pooggin

Nucleic Acids Res 2011 Jul 4;39(12):5003-14. Epub 2011 Mar 4.

Institute of Botany, University of Basel, Schönbeinstrasse 6, 4056 Basel, Switzerland.

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http://dx.doi.org/10.1093/nar/gkr119DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3130284PMC
July 2011

BRAF mutations in hairy-cell leukemia.

Authors:
Enrico Tiacci Vladimir Trifonov Gianluca Schiavoni Antony Holmes Wolfgang Kern Maria Paola Martelli Alessandra Pucciarini Barbara Bigerna Roberta Pacini Victoria A Wells Paolo Sportoletti Valentina Pettirossi Roberta Mannucci Oliver Elliott Arcangelo Liso Achille Ambrosetti Alessandro Pulsoni Francesco Forconi Livio Trentin Gianpietro Semenzato Giorgio Inghirami Monia Capponi Francesco Di Raimondo Caterina Patti Luca Arcaini Pellegrino Musto Stefano Pileri Claudia Haferlach Susanne Schnittger Giovanni Pizzolo Robin Foà Laurent Farinelli Torsten Haferlach Laura Pasqualucci Raul Rabadan Brunangelo Falini

N Engl J Med 2011 Jun 11;364(24):2305-15. Epub 2011 Jun 11.

Institute of Hematology, University of Perugia, Perugia, Italy.

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http://www.nejm.org/doi/abs/10.1056/NEJMoa1014209
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http://dx.doi.org/10.1056/NEJMoa1014209DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3689585PMC
June 2011

The genome of the fire ant Solenopsis invicta.

Authors:
Yannick Wurm John Wang Oksana Riba-Grognuz Miguel Corona Sanne Nygaard Brendan G Hunt Krista K Ingram Laurent Falquet Mingkwan Nipitwattanaphon Dietrich Gotzek Michiel B Dijkstra Jan Oettler Fabien Comtesse Cheng-Jen Shih Wen-Jer Wu Chin-Cheng Yang Jerome Thomas Emmanuel Beaudoing Sylvain Pradervand Volker Flegel Erin D Cook Roberto Fabbretti Heinz Stockinger Li Long William G Farmerie Jane Oakey Jacobus J Boomsma Pekka Pamilo Soojin V Yi Jürgen Heinze Michael A D Goodisman Laurent Farinelli Keith Harshman Nicolas Hulo Lorenzo Cerutti Ioannis Xenarios Dewayne Shoemaker Laurent Keller

Proc Natl Acad Sci U S A 2011 Apr 31;108(14):5679-84. Epub 2011 Jan 31.

Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland.

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http://dx.doi.org/10.1073/pnas.1009690108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3078418PMC
April 2011

Chromosome conformation capture uncovers potential genome-wide interactions between human conserved non-coding sequences.

Authors:
Daniel Robyr Marc Friedli Corinne Gehrig Mélanie Arcangeli Marilyn Marin Michel Guipponi Laurent Farinelli Isabelle Barde Sonia Verp Didier Trono Stylianos E Antonarakis

PLoS One 2011 Mar 7;6(3):e17634. Epub 2011 Mar 7.

Department of Genetic Medicine and Development, University of Geneva Medical School and University Hospitals of Geneva, Geneva, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0017634PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3049788PMC
March 2011

Efficient mutation identification in zebrafish by microarray capturing and next generation sequencing.

Authors:
Franck Bontems Loic Baerlocher Sabrina Mehenni Ilham Bahechar Laurent Farinelli Roland Dosch

Biochem Biophys Res Commun 2011 Feb 8;405(3):373-6. Epub 2011 Jan 8.

Department of Zoology and Animal Biology, University of Geneva, Switzerland.

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http://dx.doi.org/10.1016/j.bbrc.2011.01.024DOI Listing
February 2011

Whole genome sequencing of Saccharomyces cerevisiae: from genotype to phenotype for improved metabolic engineering applications.

Authors:
José Manuel Otero Wanwipa Vongsangnak Mohammad A Asadollahi Roberto Olivares-Hernandes Jérôme Maury Laurent Farinelli Loïc Barlocher Magne Osterås Michel Schalk Anthony Clark Jens Nielsen

BMC Genomics 2010 Dec 22;11:723. Epub 2010 Dec 22.

Department of Chemical and Biological Engineering, Chalmers University of Technology, SE-41296 Gothenburg, Sweden.

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http://dx.doi.org/10.1186/1471-2164-11-723DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3022925PMC
December 2010

Commercially available outbred mice for genome-wide association studies.

Authors:
Binnaz Yalcin Jérôme Nicod Amarjit Bhomra Stuart Davidson James Cleak Laurent Farinelli Magne Østerås Adam Whitley Wei Yuan Xiangchao Gan Martin Goodson Paul Klenerman Ansu Satpathy Diane Mathis Christophe Benoist David J Adams Richard Mott Jonathan Flint

PLoS Genet 2010 Sep 2;6(9):e1001085. Epub 2010 Sep 2.

Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom.

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http://dx.doi.org/10.1371/journal.pgen.1001085DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2932682PMC
September 2010

The complete sequence of the smallest known nuclear genome from the microsporidian Encephalitozoon intestinalis.

Authors:
Nicolas Corradi Jean-François Pombert Laurent Farinelli Elizabeth S Didier Patrick J Keeling

Nat Commun 2010 Sep 21;1:77. Epub 2010 Sep 21.

Department of Botany, Canadian Institute for Advanced Research, University of British Columbia, 3529-6270 University Boulevard, Vancouver, British Columbia, Canada V6T 1Z4.

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http://dx.doi.org/10.1038/ncomms1082DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4355639PMC
September 2010

Spliced leader trapping reveals widespread alternative splicing patterns in the highly dynamic transcriptome of Trypanosoma brucei.

Authors:
Daniel Nilsson Kapila Gunasekera Jan Mani Magne Osteras Laurent Farinelli Loic Baerlocher Isabel Roditi Torsten Ochsenreiter

PLoS Pathog 2010 Aug 5;6(8):e1001037. Epub 2010 Aug 5.

Institute of Cell Biology, University of Bern, Bern, Switzerland.

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http://dx.doi.org/10.1371/journal.ppat.1001037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2916883PMC
August 2010

Altered histone acetylation is associated with age-dependent memory impairment in mice.

Authors:
Shahaf Peleg Farahnaz Sananbenesi Athanasios Zovoilis Susanne Burkhardt Sanaz Bahari-Javan Roberto Carlos Agis-Balboa Perla Cota Jessica Lee Wittnam Andreas Gogol-Doering Lennart Opitz Gabriella Salinas-Riester Markus Dettenhofer Hui Kang Laurent Farinelli Wei Chen André Fischer

Science 2010 May;328(5979):753-6

Laboratory for Aging and Cognitive Diseases, European Neuroscience Institute, Grisebach Str. 5, D-37077 Goettingen, Germany.

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http://dx.doi.org/10.1126/science.1186088DOI Listing
May 2010

Rhinovirus genome evolution during experimental human infection.

Authors:
Samuel Cordey Thomas Junier Daniel Gerlach Francesca Gobbini Laurent Farinelli Evgeny M Zdobnov Birgit Winther Caroline Tapparel Laurent Kaiser

PLoS One 2010 May 11;5(5):e10588. Epub 2010 May 11.

Laboratory of Virology, Division of Infectious Diseases and Division of Laboratory Medicine, University of Geneva Hospitals, Geneva, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0010588PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2868056PMC
May 2010

Cartography of methicillin-resistant S. aureus transcripts: detection, orientation and temporal expression during growth phase and stress conditions.

Authors:
Marie Beaume David Hernandez Laurent Farinelli Cécile Deluen Patrick Linder Christine Gaspin Pascale Romby Jacques Schrenzel Patrice Francois

PLoS One 2010 May 20;5(5):e10725. Epub 2010 May 20.

Genomic Research Laboratory, Infectious Diseases Service, Geneva University Hospitals, Geneva, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0010725PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2873960PMC
May 2010

Impact of replication timing on non-CpG and CpG substitution rates in mammalian genomes.

Authors:
Chun-Long Chen Aurélien Rappailles Lauranne Duquenne Maxime Huvet Guillaume Guilbaud Laurent Farinelli Benjamin Audit Yves d'Aubenton-Carafa Alain Arneodo Olivier Hyrien Claude Thermes

Genome Res 2010 Apr 26;20(4):447-57. Epub 2010 Jan 26.

Centre de Génétique Moléculaire, Allée de la Terrasse, 91198 Gif-sur-Yvette, France.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.098947.109
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http://dx.doi.org/10.1101/gr.098947.109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2847748PMC
April 2010

Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP).

Authors:
Kerstin Kaufmann Jose M Muiño Magne Østerås Laurent Farinelli Pawel Krajewski Gerco C Angenent

Nat Protoc 2010 Mar 18;5(3):457-72. Epub 2010 Feb 18.

Laboratory of Molecular Biology, Wageningen University, Wageningen, The Netherlands.

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http://dx.doi.org/10.1038/nprot.2009.244DOI Listing
March 2010

Metagenomic study of the oral microbiota by Illumina high-throughput sequencing.

Authors:
Vladimir Lazarevic Katrine Whiteson Susan Huse David Hernandez Laurent Farinelli Magne Osterås Jacques Schrenzel Patrice François

J Microbiol Methods 2009 Dec 29;79(3):266-71. Epub 2009 Sep 29.

Genomic Research Laboratory, Geneva University Hospitals, Rue Gabrielle-Perret-Gentil 4, CH-1211 Geneva 14, Switzerland.

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http://dx.doi.org/10.1016/j.mimet.2009.09.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3568755PMC
December 2009

Detection of genomic variation by selection of a 9 mb DNA region and high throughput sequencing.

Authors:
Sergey I Nikolaev Christian Iseli Andrew J Sharp Daniel Robyr Jacques Rougemont Corinne Gehrig Laurent Farinelli Stylianos E Antonarakis

PLoS One 2009 Aug 17;4(8):e6659. Epub 2009 Aug 17.

Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0006659PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2722027PMC
August 2009

Probabilistic base calling of Solexa sequencing data.

Authors:
Jacques Rougemont Arnaud Amzallag Christian Iseli Laurent Farinelli Ioannis Xenarios Felix Naef

BMC Bioinformatics 2008 Oct 13;9:431. Epub 2008 Oct 13.

School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), 1015 Lausanne, Switzerland.

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http://dx.doi.org/10.1186/1471-2105-9-431DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2575221PMC
October 2008

De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer.

Authors:
David Hernandez Patrice François Laurent Farinelli Magne Osterås Jacques Schrenzel

Genome Res 2008 May 10;18(5):802-9. Epub 2008 Mar 10.

Genomic Research Laboratory, Infectious Diseases Service, Geneva University Hospitals and the University of Geneva, CH-1211 Geneva 4, Switzerland.

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http://dx.doi.org/10.1101/gr.072033.107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2336802PMC
May 2008