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authIdHal_s : derrien-thomas
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Identification of genomic regions associated with phenotypic variation between dog breeds using selection mapping.

Amaury Vaysse , Abhirami Ratnakumar , Thomas Derrien , Erik Axelsson , Gerli Rosengren Pielberg et al.
PLoS Genetics, 2011, 7 (10), pp.e1002316. ⟨10.1371/journal.pgen.1002316⟩
Journal articles inserm-00638834v1
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Storing the declaration of human rights on one data DNA molecule

Gouenou Coatrieux , Chloé Berton , Elsa Dupraz , Belaid Hamoum , Thomas Derrien et al.
CominLabs day 2022, Oct 2022, Rennes, France. pp.1-1
Conference poster hal-03817852v1
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Livestock genome annotation: transcriptome and chromatin structure profiling in cattle, goat, chicken and pig

Sylvain Foissac , Sarah Djebali , Kylie Munyard , Nathalie Vialaneix , Andrea Rau et al.
2018
Preprints, Working Papers, ... hal-02791029v1

The tree that hides the forest: identification of common predisposing loci in several hematopoietic cancers and several dog breeds

Benoit Hédan , Edouard Cadieu , Maud Rimbault , Amaury Vaysse , Patrick Devauchelle et al.
2020
Preprints, Working Papers, ... hal-03007317v1

Interest of circulating tumor DNA as a biomarker for canine cancers: illustration in histiocytic sarcoma, oral malignant melanoma and multicentric lymphoma

Anaïs Prouteau , Jérôme Alexandre Denis , Pauline de Fornel , Edouard Cadieu , Thomas Derrien et al.
2020
Preprints, Working Papers, ... hal-03007320v1
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Identification of long non-coding RNAs in insects genomes

Fabrice Legeai , Thomas Derrien
Current Opinion in Insect Science, 2015, 7, pp.37 - 44. ⟨10.1016/j.cois.2015.01.003⟩
Journal articles hal-01240461v1
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Circulating tumor DNA is detectable in canine histiocytic sarcoma, oral malignant melanoma, and multicentric lymphoma

Anaïs Prouteau , Jérôme Alexandre Denis , Pauline de Fornel , Edouard Cadieu , Thomas Derrien et al.
Scientific Reports, 2021, 11 (1), ⟨10.1038/s41598-020-80332-y⟩
Journal articles hal-03110876v1
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Long non-­‐coding RNA in the pea aphid; identification and comparative expression in sexual and asexual embryos

Fabrice Legeai , Thomas Derrien , Valentin Wucher , David Audrey , Gaël Le Trionnaire et al.
Arthropod Genomics Symposium, Jun 2014, Urbana, United States
Conference papers hal-01091304v1
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An exome sequencing based approach for genome-wide association studies in the dog

Bart J. G. Broeckx , Thomas Derrien , Stephanie Mottier , Valentin Wucher , Edouard Cadieu et al.
Scientific Reports, 2017, 7 (1), pp.15680. ⟨10.1038/s41598-017-15947-9⟩
Journal articles hal-01659287v1
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Long noncoding RNA repertoire in chicken liver and adipose tissue

Kévin Muret , Christophe C. Klopp , Valentin Wucher , Diane Esquerré , Fabrice Legeai et al.
Genetics Selection Evolution, 2017, 49 (1), pp.6. ⟨10.1186/s12711-016-0275-0⟩
Journal articles hal-01431420v1
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FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome

Valentin Wucher , Fabrice Legeai , Benoit Hedan , Guillaume Rizk , Laëtitia Lagoutte et al.
Nucleic Acids Research, 2017, 45 (8), pp.12. ⟨10.1093/nar/gkw1306⟩
Journal articles hal-01532061v1
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PTPN11 mutations in canine and human disseminated histiocytic sarcoma

Benoit Hedan , Mélanie Rault , Jérôme Abadie , Ronan Ulvé , Nadine Botherel et al.
International Journal of Cancer, 2020, 147 (6), pp.1657-1665. ⟨10.1002/ijc.32991⟩
Journal articles hal-02534873v1

nBioinformatics Pipeline for Transcriptome Sequencing Analysis

Sarah Djebali , Valentin Wucher , Sylvain Foissac , Christophe Hitte , Erwan Corre et al.
Enhancer RNAs : Methods and Protocols, 1468 (Chapter 14), Humana Press Inc., 2017, Methods in Molecular Biology, 978-1-4939-4033-2. ⟨10.1007/978-1-4939-4035-6_14⟩
Book sections hal-02788591v1
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Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species

Thomas C. Mathers , Yazhou Chen , Gemy Kaithakottil , Fabrice Legeai , Sam T. Mugford et al.
Genome Biology, 2017, 18 (1), pp.27. ⟨10.1186/s13059-016-1145-3⟩
Journal articles hal-01500475v1
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Fast computation and applications of genome mappability.

Thomas Derrien , Jordi Estellé , Santiago Marco Sola , David G. Knowles , Emanuele Raineri et al.
PLoS ONE, 2012, 7 (1), pp.e30377. ⟨10.1371/journal.pone.0030377⟩
Journal articles inserm-00664289v1

Assessment of transcript reconstruction methods for RNA-seq.

Tamara Steijger , Josep F Abril , Pär G Engström , Felix Kokocinski , Martin Akerman et al.
Nature Methods, 2013, 10 (12), pp.1177-1184. ⟨10.1038/nmeth.2714⟩
Journal articles hal-00909081v1
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Canine Oral Melanoma Genomic and Transcriptomic Study Defines Two Molecular Subgroups with Different Therapeutical Targets

Anais Prouteau , Stephanie Mottier , Aline Primot , Edouard Cadieu , Laura Bachelot et al.
Cancers, 2022, 14 (2), pp.276. ⟨10.3390/cancers14020276⟩
Journal articles hal-03555450v1

Coat colour in dogs: identification of the merle locus in the Australian shepherd breed

Benoit Hédan , Sébastien Corre , Christophe Hitte , Stéphane Dréano , Thierry Vilboux et al.
BMC Veterinary Research, 2006, 2, pp.9. ⟨10.1186/1746-6148-2-9⟩
Journal articles hal-01068391v1
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Long-read assembly of a Great Dane genome highlights the contribution of GC-rich sequence and mobile elements to canine genomes

Julia Halo , Amanda L. Pendleton , Feichen Shen , Aurelien J. Doucet , Thomas Derrien et al.
Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (11), ⟨10.1073/pnas.2016274118⟩
Journal articles hal-03206721v1
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Long-read assembly of a Great Dane genome highlights the contribution of GC-rich sequence and mobile elements to canine genomes

Julia Halo , Amanda Pendleton , Feichen Shen , Aurélien Doucet , Thomas Derrien et al.
2020
Preprints, Working Papers, ... hal-03007309v1
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Re-annotation, improved large-scale assembly and establishment of a catalogue of noncoding loci for the genome of the model brown alga Ectocarpus

Alexandre Cormier , Komlan Avia , Lieven Sterck , Thomas Derrien , Valentin Wucher et al.
New Phytologist, 2017, 214 (1), pp.219-232. ⟨10.1111/nph.14321⟩
Journal articles hal-03145812v1
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Natural and human-driven selection of a single non-coding body size variant in ancient and modern canids

Jocelyn Plassais , Bridgett M Vonholdt , Heidi G Parker , Alberto Carmagnini , Nicolas Dubos et al.
Current Biology - CB, 2022, 32 (4), pp.889-897.e9. ⟨10.1016/j.cub.2021.12.036⟩
Journal articles hal-03555249v1
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Prognostic value of somatic focal amplifications on chromosome 30 in canine oral melanoma

Anaïs Prouteau , Florian Chocteau , Clotilde de Brito , Edouard Cadieu , Aline Primot et al.
Veterinary and Comparative Oncology, 2020, 18 (2), pp.214-223. ⟨10.1111/vco.12536⟩
Journal articles hal-02280596v1
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L'analyse comparée des génomes : applications à l'identification de nouveaux gènes canins

Thomas Derrien
Bio-informatique [q-bio.QM]. Université Rennes 1, 2007. Français. ⟨NNT : ⟩
Theses tel-00656330v1

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

Thomas Derrien , Rory Johnson , Giovanni Bussotti , Andrea Tanzer , Sarah Djebali et al.
Genome Research, 2012, 22, pp.1775-1789. ⟨10.1101/gr.132159.111⟩
Journal articles hal-01205054v1

Une nouvelle facette du génome de poule : les genes “longs non-codants

Kévin Muret , Christophe C. Klopp , Valentin Wucher , Diane Esquerre , Fabrice Legeai et al.
12. Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, Apr 2017, Tours, France. ITAVI - Institut Technique de l'Aviculture, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras, 2017, Journées de la Recherche Avicole et des Palmipèdes à Foie Gras
Conference poster hal-01605848v1

Bioinformatics Pipeline for Transcriptome Sequencing Analysis

Sarah Djebali , Valentin Wucher , Sylvain Foissac , Christophe Hitte , Erwan Corre et al.
Enhancer RNAs - Methods and Protocols, 1468, Editions Springer, pp.E1-E1, 2017, Methods in Molecular Biology, 978-1-4939-4035-6. ⟨10.1007/978-1-4939-4035-6⟩
Book sections hal-02789209v1

Long-non coding RNAs repertoire in liver and adipose tissue in chicken

Kévin Muret , Christophe C. Klopp , Valentin Wucher , Diane D. Esquerre , Fabrice Legeai et al.
XXIV International Plant & Animal Genome (Pag), Jan 2016, San Diego, United States. 2016
Conference poster hal-02799305v1

Pig chromosome X long non-coding RNA annotation and expression

Sarah Djebali , Oana Palasca , Christian Anton , Thomas Derrien , Ole Madsen et al.
PAG XXV - Plant and Animal Genome Conference, Jan 2017, San Diego, United States
Conference papers hal-02788116v1
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Long-non coding RNAs repertoires in liver and two T lymphocyte cell types in four livestock species

Kévin Muret , Sarah Djebali Quelen , Thomas Derrien , Cédric Cabau , Christophe C. Klopp et al.
36. Conference of the International Society for Animal Genetics (ISAG), Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Conference poster hal-01621915v1