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Thomas Faraut

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Large-scale detection and characterization of interchromosomal rearrangements in normozoospermic bulls using massive genotype and phenotype data sets

Jeanlin Jourdain , Harmonie Barasc , Thomas Faraut , Anne Calgaro , Nathalie Bonnet
Genome Research, 2023, 33 (6), pp.957-971. ⟨10.1101/gr.277787.123⟩
Journal articles hal-04170739v1
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Geographical contrasts of Y‐chromosomal haplogroups from wild and domestic goats reveal ancient migrations and recent introgressions

Isaäc J Nijman , Benjamin D Rosen , Philippe Bardou , Thomas Faraut , Tristan Cumer
Molecular Ecology, 2022, 17 p. ⟨10.1111/mec.16579⟩
Journal articles hal-03722180v1
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Unraveling the history of the genus Gallus through whole genome sequencing

Mahendra Mariadassou , Marie Suez , Sanbadam Sathyakumar , Alain Vignal , Mariangela Arca
Molecular Phylogenetics and Evolution, 2021, 158, pp.107044. ⟨10.1016/j.ympev.2020.107044⟩
Journal articles hal-03155990v1
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Correlation networks provide new insights into the architecture of testicular steroid pathways in pigs

Annie Robic , Thomas Faraut , Katia Feve , Sarah Djebali , Armelle Prunier
Genes, 2021, 12 (4), pp.1-19. ⟨10.3390/genes12040551⟩
Journal articles hal-03222223v1
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VarGoats project: a dataset of 1159 whole-genome sequences to dissect Capra hircus global diversity

Laure Denoyelle , Estelle Talouarn , Philippe Bardou , Licia Colli , Adriana Alberti
Genetics Selection Evolution, 2021, 53 (1), 14 p. ⟨10.1186/s12711-021-00659-6⟩
Journal articles hal-03480970v1
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Comparative analysis of the circular transcriptome in muscle, liver, and testis in three livestock species

Annie Robic , Chloé Cerutti , Christa Kühn , Thomas Faraut
Frontiers in Genetics, 2021, 12, ⟨10.3389/fgene.2021.665153⟩
Journal articles hal-03264869v1

Analysis of pig transcriptomes suggests a global regulation mechanism enabling temporary bursts of circular RNAs

Annie Robic , Thomas Faraut , Sarah Djebali , Rosemarie Weikard , Katia Feve
RNA Biology, 2019, 16, pp.1-15. ⟨10.1080/15476286.2019.1621621⟩
Journal articles hal-02622408v1
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Multi-species annotation of transcriptome and chromatin structure in domesticated animals

Sylvain Foissac , Sarah Djebali , Kylie Munyard , Nathalie Vialaneix , Andrea Rau
BMC Biology, 2019, 17 (1), 25 p. ⟨10.1186/s12915-019-0726-5⟩
Journal articles hal-02437599v1
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Identification of a t(3;4)(p1.3;q1.5) translocation breakpoint in pigs using somatic cell hybrid mapping and high-resolution mate-pair sequencing

Katia Feve , Sylvain Foissac , Alain Pinton , Florence Mompart , Diane Esquerré
PLoS ONE, 2017, 12 (11), Non paginé. ⟨10.1371/journal.pone.0187617⟩
Journal articles hal-02622330v1

Accounting for Linkage Disequilibrium in genome scans for selection without individual genotypes: the local score approach

Maria Inès Fariello Rico , Simon Boitard , Sabine Mercier , David Robelin , Thomas Faraut
Molecular Ecology, 2017, 26 (14), pp.3700-3714. ⟨10.1111/mec.14141⟩
Journal articles hal-01607837v1
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The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution

Hélène Badouin , Jerome Gouzy , Christopher Grassa , Florent Murat , S Evan Staton
Nature, 2017, 546 (7656), pp.148-152. ⟨10.1038/nature22380⟩
Journal articles hal-01603287v1
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Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds

Magali San Cristobal , Florian Rohart , Christine Lascor , Marcel Bouffaud , Lidwine Trouilh
BMC Genomics, 2015, 16, Non paginé. ⟨10.1186/s12864-015-2259-9⟩
Journal articles hal-01245970v1

Pathways and genes involved in steroid hormone metabolism in male pigs

Annie Robic , Thomas Faraut , Armelle Prunier
Journal of Steroid Biochemistry and Molecular Biology, 2014, 140, pp.44-55. ⟨10.1016/j.jsbmb.2013.11.001⟩
Journal articles hal-01210569v1
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The sheep genome illuminates biology of the rumen and lipid metabolism

Yu Jiang , Min Xie , Wenbin Chen , Richard Talbot , Jillian F. Maddox
Science, 2014, 344 (6188), pp.1168-1173. ⟨10.1126/science.1252806⟩
Journal articles hal-02635391v1
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Next-Generation Annotation of Prokaryotic Genomes with EuGene-P: Application to Sinorhizobium meliloti 2011

Erika Sallet , Brice Roux , Laurent Sauviac , M.-F. Jardinaud , S. Carrere
DNA Research, 2013, 20 (4), pp.339-353. ⟨10.1093/dnares/dst014⟩
Journal articles hal-03082947v1
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Génomique des canards

Alain Vignal , Christian Diot , Caroline Molette , Thomas Faraut , Man Rao
INRA Productions Animales, 2013, 26 (5), pp.391-402
Journal articles hal-01207754v1

The duck genome and transcriptome provide insight into an avian influenza virus reservoir species

Yinhua Huang , Yingrui Li , David W Burt , Hualan Chen , Yong Zhang
Nature Genetics, 2013, 45 (7), pp.776-783. ⟨10.1038/ng.2657⟩
Journal articles hal-02652041v1

Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus)

Yang Dong , Min Xie , Yu Jiang , Nianqing Xiao , Xiaoyong Du
Nature Biotechnology, 2013, 31 (2), pp.135-141. ⟨10.1038/nbt.2478⟩
Journal articles hal-02651460v1
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A duck RH panel and its potential for assisting NGS genome assembly

Man Rao , Mireille Morisson , Thomas Faraut , Suzanne Bardes , Katia K. Feve
BMC Genomics, 2012, 13 (september), Non paginé. ⟨10.1186/1471-2164-13-513⟩
Journal articles hal-02646793v1
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High-resolution autosomal radiation hybrid maps of the pig genome and their contribution to the genome sequence assembly

Bertrand Servin , Thomas Faraut , Nathalie N. Iannuccelli , Diana Zelenika , Denis Milan
BMC Genomics, 2012, 13, online (november), Non paginé. ⟨10.1186/1471-2164-13-585⟩
Journal articles hal-02644217v1

Analyses of pig genomes provide insight into porcine demography and evolution

Martien A. M. Groenen , Alan L. Archibald , Hirohide Uenishi , Christopher K. Tuggle , Yasuhiro Takeuchi
Nature, 2012, 491 (7426), pp.393-398. ⟨10.1038/nature11622⟩
Journal articles cea-00880676v1
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Detecting long tandem duplications in genomic sequences

Eric Audemard , Thomas Schiex , Thomas Faraut
BMC Bioinformatics, 2012, 13, online (may), Non paginé. ⟨10.1186/1471-2105-13-83⟩
Journal articles hal-02650334v1
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Genetic variability of transcript abundance in pig peri-mortem skeletal muscle: eQTL localized genes involved in stress response, cell death, muscle disorders and metabolism.

Laurence Liaubet , Valérie Lobjois , Thomas Faraut , Aurélie Tircazes , Francis Benne
BMC Genomics, 2011, 12 (november), pp.548. ⟨10.1186/1471-2164-12-548⟩
Journal articles hal-00842687v1

Palaeogenomics of plants: synteny-based modelling of extinct ancestors.

Michael Abrouk , Florent Murat , Caroline Pont , Joachim Messing , Scott Jackson
Trends in Plant Science, 2010, 15 (9), pp.479-87. ⟨10.1016/j.tplants.2010.06.001⟩
Journal articles hal-00681093v1

Statistical confidence measures for genome maps: application to the validation of genome assemblies

Bertrand Servin , Simon de Givry , Thomas Faraut
Bioinformatics, 2010, 26 (24), pp.3035-3042. ⟨10.1093/bioinformatics/btq598⟩
Journal articles hal-02665786v1

Is there a leptin gene in the chicken genome? Lessons from phylogenetics, bioinformatics and genomics

Frederique Pitel , Thomas Faraut , Gilles Bruneau , Philippe Monget
General and Comparative Endocrinology, 2010, 167 (1), pp.1-5. ⟨10.1016/j.ygcen.2009.10.006⟩
Journal articles hal-01129469v1

The sheep genome reference sequence: a work in progress

. The International Sheep Genomics Consortium , A.L. Archibald , N.E. Cockett , B.P. Dalrymple , Thomas Faraut
Animal Genetics, 2010, 41 (5), pp.449-453. ⟨10.1111/j.1365-2052.2010.02100.x⟩
Journal articles hal-02668022v1

Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals

Jerome J. Salse , Michaël M. Abrouk , Stéphanie S. Bolot , Nicolas N. Guilhot , Emmanuel E. Courcelle
Proceedings of the National Academy of Sciences of the United States of America, 2009, 106 (35), pp.14908-14913. ⟨10.1073/pnas.0902350106⟩
Journal articles hal-00964188v1

Contribution of Radiation Hybrids to Genome Mapping in Domestic Animals.

Thomas Faraut , Simon de Givry , Christophe Hitte , Yvette Lahbib Mansais , Mireille Morisson
Cytogenetic and Genome Research, 2009, 126 (1-2), pp.21-33. ⟨10.1159/000245904⟩
Journal articles inserm-00442389v1

The carnitine acetyltransferase gene (CRAT): a characterization of porcine transcripts with insights into the 5'-end variants of mammalian transcripts and their possible sub-cellular localization

Annie Robic , Thomas Faraut , Laurence Liaubet , Denis Milan
Cellular and Molecular Biology Letters, 2009, 14 (1), pp.90-99. ⟨10.2478/s11658-008-0036-3⟩
Journal articles hal-02663909v1
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Narcisse: a mirror view of conserved syntenies

Emmanuel E. Courcelle , Yoann Beausse , Sébastien Letort , Olivier Stahl , Julien Fremez
Nucleic Acids Research, 2008, 36 (1), pp.D485-D490. ⟨10.1093/nar/gkm805⟩
Journal articles hal-02656575v1

Addressing chromosome evolution in the whole-genome sequence era.

Thomas Faraut
Chromosome Research, 2008, 16, pp.5-16
Journal articles hal-02653333v1

Characterization of porcine ASB6 gene and transcripts - Comparison of mammalian transcripts

Annie Robic , Thomas Faraut , Laurence Liaubet , Juliette Riquet , Denis Milan
Animal Biotechnology, 2008, 19, pp.138-143
Journal articles hal-02657001v1
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Genetic and haplotypic structure in 14 European and African cattle breeds

Mathieu M. Gautier , Thomas Faraut , Katayoun Moazami-Goudarzi , Vincent Navratil , Mario Foglio
Genetics, 2007, 177, pp.1059-1070
Journal articles hal-02660515v1

Alvira: comparative genomics of viral strains.

François Enault , Romain Fremez , Eric Baranowski , Thomas Faraut
Bioinformatics, 2007, 23 (16), pp.2178-9. ⟨10.1093/bioinformatics/btm293⟩
Journal articles hal-00535599v1

Vers une carte comparée des génomes homme / porc hautement résolutive

Yvette Lahbib Mansais , Denis Milan , Thomas Faraut , Martine M. Yerle
Biofutur, 2007, 26, pp.39-43
Journal articles hal-02662738v1

Alvira: comparative genomics of viral strains.

François Enault , Romain Fremez , Eric Baranowski , Thomas Faraut
Bioinformatics, 2007, 23, pp.2178-2179
Journal articles hal-02654862v1

A comparative genome approach to marker ordering

Thomas Faraut , Simon de Givry , Patrick P. Chabrier , Thomas Derrien , Francis Galibert
Bioinformatics, 2007, 23 (2), pp.E50-E56. ⟨10.1093/bioinformatics/btl321⟩
Journal articles hal-02667668v1

Phylogenetic exploration of bacterial genomic rearrangements.

Romain Fremez , Thomas Faraut , Gwennaële Fichant , Jerome Gouzy , Y. Quentin
Bioinformatics, 2007, 23, pp.1172-1174
Journal articles hal-02653698v1

Evolutionary breakpoints through a high-resolution comparative map between porcine chromosomes 2 and 16 and human chromosomes

Yvette Lahbib Mansais , Florence Mompart , Denis Milan , Sophie S. Leroux , Thomas Faraut
Genomics, 2006, 88, pp.504-512
Journal articles hal-02656467v1

The rat Toxo1 locus directs toxoplasmosis outcome and controls parasite proliferation and spreading by macrophage-dependent mechanisms.

Pierre Cavaillès , Véronique Sergent , Cordelia Bisanz , Olivier Papapietro , Céline Colacios
Proceedings of the National Academy of Sciences of the United States of America, 2006, 103 (3), pp.744-9. ⟨10.1073/pnas.0506643103⟩
Journal articles hal-00171244v1

A high-resolution comparative map between pig chromosome 17 and human chromosomes 4, 8, and 20: Identification of synteny breakpoints

Yvette Lahbib Mansais , P. Karlskov-Mortensen , Florence Mompart , Denis Milan , C.B. Jorgensen
Genomics, 2005, 86, pp.405-413
Journal articles hal-02670629v1

Comparison of male and female meiotic segregation patterns in translocation heterozygotes : a case study in an animal model (Sus scrofa domestica L.)

Alain Pinton , Thomas Faraut , Martine M. Yerle , Joseph Gruand , F. Pellestor
Human Reproduction, 2005, 20, pp.2476-2482
Journal articles hal-02674136v1

A dense comparative gene map between human chromosome 19q13.3 -> q13.4 and a homologous segment of swine chromosome 6.

N. Bosak , R. Yamomoto , S. Fujisaki , Thomas Faraut , S. Kiuchi
Cytogenetic and Genome Research, 2005, 108, pp.317-321
Journal articles hal-02678722v1
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A gene-based radiation hybrid map of chicken microchromosome 14 : comparison to human and alignment to the assembled chicken sequence

Mireille Morisson , Sophie S. Leroux , Carine Jiguet-Jiglaire , Sirine Assaf , Frederique Pitel
Genetics Selection Evolution, 2005, 37, pp.229-251. ⟨10.1051/gse:2004046⟩
Journal articles hal-02670446v1

Comparative mapping of genomes.

Thomas Faraut
Biofutur, 2005, 37, pp.40
Journal articles hal-02672330v1

Development of a gene-based radiation hybrid map of chicken Chromosome 7 and comparison to human and mouse.

Mireille Morisson , C. Jiguet-Jiglaire , Sophie S. Leroux , Thomas Faraut , Suzanne Bardes
Mammalian Genome, 2004, 15, pp.732-739
Journal articles hal-02673764v1

The cyclic genetic code as a constraint satisfaction problem.

G. Weil , K. Heus , Thomas Faraut , J. Demongeot
Theoretical Computer Science, 2004, 322, pp.313-334
Journal articles hal-02673209v1

Male and female segregation profiles in two reciprocal translocations t(12 ; 14)(q13 ; q21) t(3 ; 15)(q27 ; q13) in the pig species

Alain Pinton , A. Ducos , Martine M. Yerle , Thomas Faraut , F. Pellestor
Fertility and Sterility, 2004, 82 (Suppl. 2), pp.S272
Journal articles hal-02674861v1

RH mapping in pig to study evolutionary breakpoints between HSA7 and SSC3, 9 and 18

Florence Mompart , Yvette Lahbib Mansais , Thomas Faraut , Denis Milan , Martine M. Yerle
Cytogenetic and Genome Research, 2004, 106, pp.18
Journal articles hal-02670370v1

A comparative porcine-human RH map for SSC2 focusing on synteny breakpoints with human

Yvette Lahbib Mansais , Florence Mompart , Thomas Faraut , Denis Milan , Martine M. Yerle
Cytogenetic and Genome Research, 2004, 106, pp.11
Journal articles hal-02669950v1

A comparative porcine-human RH map for SSC2 focusing on synteny breakpoints with human

Yvette Lahbib Mansais , Florence Mompart , Thomas Faraut , Denis Milan , Martine M. Yerle
Cytogenetic and Genome Research, 2004, 106, pp.11-11
Journal articles hal-02673120v1

Male and female segregation profiles in two reciprocal translocations t(12;14)(q13;q21) and t(3;15)(q27;q13) in pig

Alain Pinton , A. Ducos , Martine M. Yerle , Thomas Faraut , F. Pellestor
Cytogenetic and Genome Research, 2004, 106, pp.14-15
Journal articles hal-02671512v1
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The Iccare web server: an attempt to merge sequence and mapping information for plant and animal species.

C. Müller , M. Denis , Laurent Gentzbittel , Thomas Faraut
Nucleic Acids Research, 2004, 32, pp.W429-W434
Journal articles hal-02675844v1

Human cytomegalovirus carries a cell-derived phospholipase A2 required for infectivity.

C. Allal , C. Buisson-Brenac , V. Marion , C. Claudel-Renard , Thomas Faraut
Journal of Virology, 2004, 78, pp.7717-7726
Journal articles hal-02674890v1

A new contribution to the integration of human and porcine genome maps: 623 new points of homology

Annie Robic , Thomas Faraut , Nathalie N. Iannuccelli , Yvette Lahbib Mansais , V. Cantegrel
Cytogenetic and Genome Research, 2003, 102, pp.100-108
Journal articles hal-02671887v1

Construction of a high-resolution comparative gene map between swine chromosome region 6q11 -> q21 and human chromosome 19 q-arm by RH mapping of 51 genes.

N. Bosak , Thomas Faraut , S. Mikawa , H. Uenishi , S. Kiuchi
Cytogenetic and Genome Research, 2003, 102, pp.109-115
Journal articles hal-02676236v1
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Enzyme-specific profiles for genome annotation: PRIAM.

C. Claudel-Renard , Claude C. Chevalet , Thomas Faraut , D. Kahn
Nucleic Acids Research, 2003, 31, pp.6633-6639
Journal articles hal-02676567v1

Rearranged gene order between pig and human in a QTL region on SSC 7

Olivier O. Demeure , Christine Renard , Martine M. Yerle , Thomas Faraut , Juliette Riquet
Mammalian Genome, 2003, 14, pp.71-80. ⟨10.1007/s00335-002-3034-1⟩
Journal articles hal-02679052v1

A radiation hybrid panel and its use in developing a gene map of the chicken

Mireille Morisson , C. Jiguet-Jiglaire , Alexis Lemiere , Sophie S. Leroux , Thomas Faraut
British Poultry Science, 2003, 44, pp.797-798
Journal articles hal-02674651v1

A chicken radiation hybrid panel and its use for mapping

Mireille Morisson , Thomas Faraut , Martine M. Yerle , Alain Vignal
Archiv für Geflügelkunde. Sonderheft, 2002, Special Issue, pp.35
Journal articles hal-02675399v1

Cooperation of selection and meiotic mechanisms in the production of imbalances in reciprocal translocations.

Thomas Faraut , M.A. Mermet , J. Demongeot , O. Cohen
Cytogenetics and Cell Genetics, 2000, 88, pp.15-21
Journal articles hal-02694908v1
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Improvement of the Bos taurus Genome Assembly using New Sequencing Technologies

Camille Eché , Carole Iampietro , Clement Birbes , Andreea Dreau , Claire Kuchly
Discoveries Roadshow 2023 - PacBio, PacBio, May 2023, Paris, France
Conference papers hal-04096124v1
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Sex differences in recombination maps are associated with differential hotspot usage in sheep

Héléna Vassilief , Mohamed Id Bella , Flavie Tortereau , Dominique Hazard , Thomas Faraut
World Congress on Genetics Applied to Livestock Production, Jul 2022, Rotterdam, Netherlands. pp.861-864, ⟨10.3920/978-90-8686-940-4_202⟩
Conference papers hal-04065264v1
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Variations de structure et longues lectures

Thomas Faraut
Colloque INRAE Genomics, INRAE Genomics, May 2022, Orléans, France
Conference papers hal-04220082v1
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Y-chromosomal haplotypes in domestic and wild goats reveal ancient paternal bottlenecks and recent introgressions

Vargoats Consortium , Isaäc J Nijman , Benjamin D Rosen , Thomas Faraut , Philippe Bardou
ISGC and IGGC Virtual Meeting, Jun 2021, Toulouse-Dunedin, France
Conference papers hal-03817722v1
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The lariat-derived circRNA from ATXN2L: an outstanding circRNA in pigs

Annie Robic , Thomas Faraut , Chloé Cerutti , Julie Demars , Christa Kühn
EMBO | EMBL Symposium: The Non-Coding Genome, Oct 2021, virtual, Germany
Conference papers hal-03445759v1
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Circular RNAs detection and cross-species conservation

Chloé Cerutti , Annie Robic , Thomas Faraut
JOBIM 2020 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2020, virtual meeting, France
Conference papers hal-03703612v1

Chromatin accessibility conservation across four livestock species

Sarah Djebali Quelen , Sylvain Foissac , Nathalie Vialaneix , Kylie Munyard , Andrea Rau
Conference of the International Society for Animal Genetics (ISAG 2019), Jul 2019, Llieda, Spain
Conference papers hal-02788732v1

Pig transcriptome analysis suggests a global regulation mechanism enabling temporary bursts of circular RNAs

Annie Robic , Katia Feve , Thomas Faraut , Sarah Djebali , R. Weikard
37. International Society for Animal Genetics Conference (ISAG), Jul 2019, Lleida, Spain
Conference papers hal-02788077v1

VarGoats: first results of an international 1000-genome project

Gwenola Tosser-Klopp , Philippe Bardou , Laure Denoyelle , Thomas Faraut , Francois Pompanon
International Symposium on Environmental and Agronomical Genomics, Nov 2018, Paris, France
Conference papers hal-02785613v1
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Vers une meilleure compréhension des fonctions & des interactions des ARN circulaires

Annie Robic , Sarah Djebali Quelen , Thomas Faraut
Journées Scientifiques du Département Génétique Animale - La Génétique Animale et les Interactions, Oct 2018, Dienné, France
Conference papers hal-02785651v1

The analysis of sheep and goat genomes reveals new biological mechanisms explaining the variation of Mendelian and complex phenotypes

Gwenola Tosser-Klopp , Julie Demars , Laurence Drouilhet , Stéphane Fabre , Thomas Faraut
Séminaire mensuel (CRAG), Nov 2018, Barcelone, Spain
Conference papers hal-02785242v1

Meiotic and gene expression analyses in a case of t(1;15) azoospermic boar

Alain Pinton , Anne Calgaro , Nicolas Mary , Harmonie Barasc , Nathalie Bonnet
23. International Colloquium on Animal Cytogenetics and Genomics (23 ICACG), Jun 2018, Saint-Pétersburg, Russia. 360 p
Conference papers hal-02737986v1

Effects of balanced chromosome translocations on boar fertility and cell reprogramming

Annabelle Congras , Harmonie Barasc , Valentine Marquet , Kamila Canale-Tabet , Emeline Lhuillier
22. International Colloquium on Animal Cytogenetics and Genomics (ICACG), Jul 2016, Toulouse, France. 116p
Conference papers hal-02738753v1

Genome structural variability in the light of NGS

Thomas Faraut
22. International Colloquium on Animal Cytogenetics and Genomics (ICACG), Jul 2016, Toulouse, France. 116 p
Conference papers hal-01602943v1
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De novo Assembly of the Chinese Bamboo-Partridge Genome and Comparison with Chicken

Gabriel Rognon , Diane Esquerre , Sylvain Foissac , Alain Vignal , Jean-Luc Coville
Plant and Animal Genome (PAG), Jan 2015, San Diego, United States
Conference papers hal-01194054v1

Numerous interchromosomal rearrangements in spite of high synteny conservation between duck and chicken

Valerie Fillon , Man Rao , Thomas Faraut , Daren Griffin , Mireille Morisson
21. International Colloquium on Animal Cytogenetics and Gene Mapping, Jun 2014, Ischia, Italy
Conference papers hal-02793231v1

Improving the Pig Genome Assembly with Mate-Pair Sequencing

Sylvain Foissac , Diane D. Esquerre , Katia K. Feve , Juliette Riquet , Thomas Faraut
Plant and Animal Genome (PAG), Jan 2014, San Diego, United States
Conference papers hal-02739253v1
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Mapping by RH sequencing: organizing NGS scaffolds into chromosomes

Man Rao , Mireille Morisson , Valerie Fillon , Sophie S. Leroux , Emeline Lhuillier
21. P!ant and animal genome meeting (PAG XXI), Jan 2013, San Diego, Californie, United States
Conference papers hal-02749835v1
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Detection de SNP chez la caille : production d'un outil commum pour des programmes scientifiques multiples

Sophie Leroux , Patrice Dehais , Alain Vignal , Olivier Bouchez , Thomas Faraut
10. Journées de la Recherche Avicole et Palmipèdes à Foie Gras, Institut Technique de l'Aviculture et des Elevages de Petits Animaux (ITAVI). Nouzilly, FRA. Institut National de la Recherche Agronomique (INRA). Agence nationale de sécurité sanitaire de l'alimentation, de l'environnement et du travail (ANSES), FRA., Mar 2013, La Rochelle, France
Conference papers hal-01190264v1

Local score based method on pool-sequenced behaviour-divergent quail lines precisely detected selection signatures related to autism

Simon S. Boitard , Maria Inès M. I. Fariello Rico , Sabine Mercier , David Robelin , Thomas Faraut
35. Colloque du Petit Pois Déridé, Aug 2013, Marseille, France
Conference papers hal-02810860v1

Goat genome assembly, availability of an international 50K SNP chip and RH panel: an update of the international goat genome consortium projects

Gwenola Tosser-Klopp , Cédric Cabau , Andre Eggen , Thomas Faraut , Henri Heuven
20. Conference of the Plant & Animal Genome, Plant & Animal Genome (PAG). USA., Jan 2012, San Diego, United States. 28 diapositives
Conference papers hal-01019243v1
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Towards a high density SNP International Goat Chip

Gwenola Tosser-Klopp , Abdullah Johari Jiken , Philippe Bardou , Cédric Cabau , Patrice Dehais
Plant and Animal Genome, Jan 2011, San Diégo, United States
Conference papers hal-01194170v1

Modelling RH maps uncertainty and application to the validation of whole genome assemblies.

Bertrand Servin , Sebastien Givry , Thomas Faraut
9th World Congress on Genetics Applied to Livestock Production, 2010, Leipzig, pp.Inconnu
Conference papers hal-02813656v1
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Détection de régions génomiques homologues par un algorithme de flots avec coûts

Eric Audemard , Thomas Faraut , Thomas Schiex
Congrès ROADEF'2010, Société Française de Recherche Opérationnelle et d'Aide à la Décision (SFROAD). FRA., Feb 2010, Toulouse, France. 2 p
Conference papers hal-02752130v1

Utilisation dune puce 60 000 SNP pour cartographier finement des QTL affectant des caractères de production, de résistance aux maladies et de comportement chez les ovins

Carole Moreno-Romieux Moreno , Bertrand Servin , Thomas Faraut , Christophe C. Klopp , Rachel Rupp
16. Rencontres autour des Recherches sur les Ruminants, Dec 2009, Paris, France
Conference papers hal-02755058v1

Modéliser l'incertitude des cartes d'hybrides irradiés : application à la validation d'assemblage de génomes complets.

Bertrand Servin , Thomas Faraut , Sebastien Givry
Journées Scientifiques, Département de Génétique Animale, Apr 2008, Lacanau
Conference papers hal-02754669v1

D'Iccare à Narcisse, une promenade parmi les mythes de la bioinformatique animale.

Thomas Faraut , E. Courcelle , Jerome Gouzy
Journées Scientifiques, Département de Génétique Animale, Apr 2008, Lacanau
Conference papers hal-02756487v1

Deux exemples d'épissage alternatif (ASB6 et CRAT) pour montrer l'intérêt de l'étude de ce phénomène chez les espèces d'élevage

Annie Robic , Thomas Faraut , Laurence Liaubet
Journées Scientifiques, Département de Génétique Animale, Apr 2008, Lacanau
Conference papers hal-02752629v1

Présentation du projet ANR 2008 SheepSNPQTL : utilisation de la puce 60 000 SNP pour la cartographie fine de QTL chez les ovins.

Carole Moreno-Romieux Moreno , Andres Legarra , David Robelin , Christèle Robert-Granié , Rachel Rupp
Journées Scientifiques, Département de Génétique Animale, Apr 2008, Lacanau, France
Conference papers hal-02813290v1

ArcAnGe, annotating, representing and comparing animal genomes.

Thomas Faraut , E. Courcelle , Jerome Gouzy
Séminaire AGENAE, La Rochelle, Oct 2008, France, pp.Inconnu
Conference papers hal-02815778v1

High resolution chicken radiation hybrid maps using the IlluminaTM technology.

Alain Vignal , Caroline Hourcade , Thomas Faraut , Sophie S. Leroux , Marine M. Douaud
31st Conference of the International Society of Animal Genetics (ISAG), 2008, Amsterdam, pp.Inconnu
Conference papers hal-02815790v1

A SNP detection project using one million reads from WGS libraries produced from one pig from seven different breeds.

Patrice Dehais , Denis Milan , Thomas Faraut , C. Dossat , Patrick Wincker
International Plant & Animal Genomes XV Conference, San Diego, 2007, California, France
Conference papers hal-02751166v1

Chromosomal rearrangements and comparative mapping.

Thomas Faraut
Séminaire Cytogénétique des plantes Clermont-Ferrand, Apr 2007, France, pp.Inconnu
Conference papers hal-02811665v1

The rat Toxo1 locus directs toxoplasmosis outcome and controls parasite proliferation and spreading by macrophage-dependent mechanisms

P. Cavaillès , V. Sergent , C. Bisanz , O. Papapietro , C. Colacios
Inconnu, 2006, Inconnu
Conference papers hal-02752628v1

High resolution mapping of evolutionary breakpoints in pigs

Yvette Lahbib Mansais , Florence Mompart , Denis Milan , Thomas Faraut , Martine M. Yerle
17. European Colloquium on Animal Cytogenetics and Gene mapping, June 18-21, 2006, Lisbonne, Portugal
Conference papers hal-02813597v1

Reciprocal translocations in pigs: frequency in the French populations and analysis of their consequences on reproduction abilities of carrier animals

Alain Pinton , Martine M. Yerle , Thomas Faraut , F. Pellestor , H.M. Berland
11th Internnational Congress on Biotechnology in Animal Reproduction, Sep 2004, Rapotin, pp.Inconnu
Conference papers hal-02827383v1

Male and female segregation profiles in two reciprocal translocations t(12;14)(q13;q21) and t(3;15)(q27;q13) in the pig species

Alain Pinton , A. Ducos , Martine M. Yerle , Thomas Faraut , F. Pellestor
60th Annual Meeting of the American Society for Reproductive Medicine, Oct 2004, Philadelphia, pp.Inconnu
Conference papers hal-02831758v1

A comparative radiation hybrid map of SSC17 and human homologous chromosomes HSA 20, 8 and 4

Yvette Lahbib Mansais , M.P. Karlskov , Florence Mompart , Jan Gorodkin , Thomas Faraut
29. International Conference on International Society of Animla Genetics, Sep 2004, Tokyo, Japan
Conference papers hal-02761544v1

A comparative porcine-human RH map for SSC2 focusing on synteny breakpoints with human

Yvette Lahbib Mansais , Florence Mompart , Thomas Faraut , Denis Milan , Martine M. Yerle
16. European Colloquium on Animal Cytogenetics and Gene Mapping, 2004, Jouy-en-Josas, France
Conference papers hal-02826042v1

RH mapping in pig to study evolutionary breakpoints between HSA7 and SSC3, 9 and 18

Florence Mompart , Yvette Lahbib Mansais , Thomas Faraut , Denis Milan , Martine M. Yerle
16. European Colloquium on Animal Cytogenetics and Gene Mapping, 2004, Jouy-en-Josas, France
Conference papers hal-02827995v1

Male and female segregation profiles in two reciprocal translocations t(12;14)(q13;q21) and t(3;15)(q27;q13) in pig

Alain Pinton , A. Ducos , Martine M. Yerle , Thomas Faraut , F. Pellestor
16th European Colloquium on Animal Cytogenetics and Gene Mapping, 2004, Jouy-en-Josas, France
Conference papers hal-02829792v1

A radiation hybrid panel and its use in developing a gene map of the chicken

Mireille Morisson , C. Jiguet-Jiglaire , Alexis Lemiere , Sophie S. Leroux , Thomas Faraut
2003 Spring Meeting of the WPSA French Branch., 2003, Inconnu
Conference papers hal-02826038v1

Un panel d'hybrides irradiés et son utilisation pour développer une carte des gènes de la poule

Mireille Morisson , C. Jiguet-Jiglaire , Alexis Lemiere , Sophie S. Leroux , Thomas Faraut
5èmes Journées de la Recherche Avicole, 2003, Tours, France
Conference papers hal-02761067v1

Integration des cartes humaines et porcines : 623 nouveaux points d'homologie

Annie Robic , Thomas Faraut , Nathalie N. Iannuccelli , Patrick Chardon , Denis Milan
Colloque Génomique des animaux d'élevage, Seignosse-le-Penon, May 2003, Seignosse-le-Peignon
Conference papers hal-02762328v1

Promises and lessons from complete genome sequences for comparative mapping.

Thomas Faraut
International Workshop on Major Genes and QTL in Sheep and Goat, 2003, Toulouse
Conference papers hal-02760525v1

A chicken radiation hybrid panel and its use for mapping

Mireille Morisson , Thomas Faraut , Martine M. Yerle , Alain Vignal
11th European Poultry Conference, Sep 2002, Bremen, Germany
Conference papers hal-02825614v1
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Major contribution to the bovine pangenome: whole genome sequences, SNPs, and structural variants of 154 bulls from 14 breeds

Amandine Suin , Camille Marcuzzo , Camille Eché , Andreea Dréau , Clément Birbes
Plant and Genome San Diego 2024, Jan 2024, San Diego, United States
Conference poster hal-04432840v1
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Rétrogènes et variation du nombre de copies chez les ruminants

Carine Genet , Stéphane Fabre , Thomas Faraut
Journées scientifiques Département Génétique Animale, Sep 2022, Bordeaux, France
Conference poster hal-04225788v1
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Structural variants detection and de novo genome assembly of a maize line

Carole Iampietro , Camille Eché , Clément Birbes , Arnaud Di Franco , Andreea Dréau
Plant & Animal Genome Conference (PAG) 2022, Jan 2022, San Diego, United States
Conference poster hal-03541379v1
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Quelques résultats du programme VarGoats : « 1000 génomes caprins »

L Denoyelle , M Amills , Philippe Bardou , Maxime Ben Braiek , Thomas Faraut
Journées Scientifiques du Département de Génétique Animale, Sep 2022, Bordeaux, France
Conference poster hal-03812438v1
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Combiner analyse d’association et génomique fonctionnelle pour la recherche de gènes candidats

Sarah Djebali , Sophie Leroux , Katia Feve , Yann Labrune , Catherine Larzul
Journées scientifiques Département Génétique animale, Sep 2022, Bordeaux, France
Conference poster hal-03936070v1
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De novo assembling 19 maize inbred lines of the European germplasm

Carole Iampietro , Camille Eché , Clement Birbes , Andreea Dreau , Erwan Denis
63rd Annual Maize Genetics Meeting, Mar 2021, virtuel, United States
Conference poster hal-03539396v1
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Structural variants detection and de novo genome assembly of a Maize line

Camille Eché , Clement Birbes , Carole Iampietro , Arnaud Di Franco , Andreea Dreau
SMRT Leiden 2021 – Young Investigator Virtual Conference, May 2021, virtuel, Netherlands
Conference poster hal-03541316v1
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The importance of annotations (reference genome and parent gene) for the study of circRNAs

Annie Robic , Thomas Faraut , Chloé Cerutti , Julie Demars , Christa Kühn
ISAG 2021- virtual conference of the International Society for Animal Genetics, Jul 2021, virtual, South Africa.
Conference poster hal-03445792v1
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De novo assembly of bovine genome using PacBio applications

Camille Eché , Clément Birbes , Carole Iampietro , Andreea Dréau , Claire Kuchly
SMRT Leiden 2021 – Young Investigator Virtual Conference, May 2021, virtuel, Netherlands
Conference poster hal-03541224v1
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A Long Read project to find optimal technologic combinations for genome assembly and variability, epigenetic marks detection and metagenomic analysis

Carole Iampietro , Camille Eché , Adrien Castinel , Rémy-Félix Serre , Christophe C. Klopp
PAG XXVIII, Plant and Animal Genome, Jan 2020, San Diego, United States. 2020
Conference poster hal-02947690v1
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the ability to produce exonic circularRNA appears to be mainly linked to the genomic structure of genes

Annie Robic , Sarah Djebali , Rosemarie Weikard , Christa Kuehn , Thomas Faraut
RNAtoul 2019, Jun 2019, Toulouse, France. 2019
Conference poster hal-02788016v1

Integrative analyses of chromosome conformation, chromatin accessibility and gene expression in human and livestock genomes

Camille Mestre , Sarah Djebali Quelen , Thomas Faraut , Nathalie Vialaneix , Andrea Rau
European Conference on Computational Biology (ECCB 2018), Sep 2018, Athènes, Greece. , 2018
Conference poster hal-02784857v1
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Présentation et premiers résultats du programme 1000 génomes caprins : VarGoats

Philippe Bardou , Céline Bourdon , Laure Denoyelle , Thomas Faraut , Estelle Talouarn
Journées Scientifiques du Département de Génétique Animale, Oct 2018, Dienné, France
Conference poster hal-03817570v1

Local Score Based Method On Pool-Sequenced Behavior-Divergent Quail Lines Precisely Detected Selection Signatures Related To Autism

Maria Inès Fariello Rico , Simon Boitard , S. Mercier , David Robelin , Thomas Faraut
10. World Congress on Genetics Applied to Livestock Production (WCGALP), Aug 2014, Vancouver, Canada. American Society of Animal Science, 2014, 10th Word Congress on Genetics Applied to Livestock Production
Conference poster hal-01194042v1
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Local Score Based Method On Pool-Sequenced Behavior-Divergent Quail Lines Precisely Detected Selection Signatures Related To Autism

Maria Inès Fariello Rico , Cécile Arnould , Simon Boitard , Patrice Dehais , Thomas Faraut
Journée Régionale de Bioinformatique et Biostatistique, Génopole Toulouse, Jun 2014, Toulouse, France. 2014
Conference poster hal-01194044v1

Evaluation of the porcine Sscrofa10.2 assembly and associated annotations.

Annie Robic , Laurence Liaubet , Agnès Bonnet , Thomas Faraut
25. International Conference Genetic Days, Sep 2012, Wroclaw, Poland. 2012
Conference poster hal-02804016v1