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Items: 45

1.

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

Robic A, Faraut T, Djebali S, Weikard R, Feve K, Maman S, Kuehn C.

RNA Biol. 2019 Sep;16(9):1190-1204. doi: 10.1080/15476286.2019.1621621. Epub 2019 Jun 3.

PMID:
31120323
2.

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.

Fève K, Foissac S, Pinton A, Mompart F, Esquerré D, Faraut T, Yerle M, Riquet J.

PLoS One. 2017 Nov 9;12(11):e0187617. doi: 10.1371/journal.pone.0187617. eCollection 2017.

3.

The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution.

Badouin H, Gouzy J, Grassa CJ, Murat F, Staton SE, Cottret L, Lelandais-Brière C, Owens GL, Carrère S, Mayjonade B, Legrand L, Gill N, Kane NC, Bowers JE, Hubner S, Bellec A, Bérard A, Bergès H, Blanchet N, Boniface MC, Brunel D, Catrice O, Chaidir N, Claudel C, Donnadieu C, Faraut T, Fievet G, Helmstetter N, King M, Knapp SJ, Lai Z, Le Paslier MC, Lippi Y, Lorenzon L, Mandel JR, Marage G, Marchand G, Marquand E, Bret-Mestries E, Morien E, Nambeesan S, Nguyen T, Pegot-Espagnet P, Pouilly N, Raftis F, Sallet E, Schiex T, Thomas J, Vandecasteele C, Varès D, Vear F, Vautrin S, Crespi M, Mangin B, Burke JM, Salse J, Muños S, Vincourt P, Rieseberg LH, Langlade NB.

Nature. 2017 Jun 1;546(7656):148-152. doi: 10.1038/nature22380. Epub 2017 May 22.

PMID:
28538728
4.

Accounting for linkage disequilibrium in genome scans for selection without individual genotypes: The local score approach.

Fariello MI, Boitard S, Mercier S, Robelin D, Faraut T, Arnould C, Recoquillay J, Bouchez O, Salin G, Dehais P, Gourichon D, Leroux S, Pitel F, Leterrier C, SanCristobal M.

Mol Ecol. 2017 Jul;26(14):3700-3714. doi: 10.1111/mec.14141. Epub 2017 May 21.

PMID:
28394503
5.

Exploring transcriptomic diversity in muscle revealed that cellular signaling pathways mainly differentiate five Western porcine breeds.

SanCristobal M, Rohart F, Lascor C, Bouffaud M, Trouilh L, Martin PG, Lippi Y, Tribout T, Faraut T, Mercat MJ, Milan D, Liaubet L.

BMC Genomics. 2015 Dec 12;16:1055. doi: 10.1186/s12864-015-2259-9.

6.

The sheep genome illuminates biology of the rumen and lipid metabolism.

Jiang Y, Xie M, Chen W, Talbot R, Maddox JF, Faraut T, Wu C, Muzny DM, Li Y, Zhang W, Stanton JA, Brauning R, Barris WC, Hourlier T, Aken BL, Searle SMJ, Adelson DL, Bian C, Cam GR, Chen Y, Cheng S, DeSilva U, Dixen K, Dong Y, Fan G, Franklin IR, Fu S, Guan R, Highland MA, Holder ME, Huang G, Ingham AB, Jhangiani SN, Kalra D, Kovar CL, Lee SL, Liu W, Liu X, Lu C, Lv T, Mathew T, McWilliam S, Menzies M, Pan S, Robelin D, Servin B, Townley D, Wang W, Wei B, White SN, Yang X, Ye C, Yue Y, Zeng P, Zhou Q, Hansen JB, Kristensen K, Gibbs RA, Flicek P, Warkup CC, Jones HE, Oddy VH, Nicholas FW, McEwan JC, Kijas J, Wang J, Worley KC, Archibald AL, Cockett N, Xu X, Wang W, Dalrymple BP.

Science. 2014 Jun 6;344(6188):1168-1173. doi: 10.1126/science.1252806.

7.

Pathways and genes involved in steroid hormone metabolism in male pigs: a review and update.

Robic A, Faraut T, Prunier A.

J Steroid Biochem Mol Biol. 2014 Mar;140:44-55. doi: 10.1016/j.jsbmb.2013.11.001. Epub 2013 Nov 12. Review.

PMID:
24239507
8.

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

Huang Y, Li Y, Burt DW, Chen H, Zhang Y, Qian W, Kim H, Gan S, Zhao Y, Li J, Yi K, Feng H, Zhu P, Li B, Liu Q, Fairley S, Magor KE, Du Z, Hu X, Goodman L, Tafer H, Vignal A, Lee T, Kim KW, Sheng Z, An Y, Searle S, Herrero J, Groenen MAM, Crooijmans RPMA, Faraut T, Cai Q, Webster RG, Aldridge JR, Warren WC, Bartschat S, Kehr S, Marz M, Stadler PF, Smith J, Kraus RHS, Zhao Y, Ren L, Fei J, Morisson M, Kaiser P, Griffin DK, Rao M, Pitel F, Wang J, Li N.

Nat Genet. 2013 Jul;45(7):776-783. doi: 10.1038/ng.2657. Epub 2013 Jun 9.

9.

Next-generation annotation of prokaryotic genomes with EuGene-P: application to Sinorhizobium meliloti 2011.

Sallet E, Roux B, Sauviac L, Jardinaud MF, Carrère S, Faraut T, de Carvalho-Niebel F, Gouzy J, Gamas P, Capela D, Bruand C, Schiex T.

DNA Res. 2013 Aug;20(4):339-54. doi: 10.1093/dnares/dst014. Epub 2013 Apr 18.

10.

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

Dong Y, Xie M, Jiang Y, Xiao N, Du X, Zhang W, Tosser-Klopp G, Wang J, Yang S, Liang J, Chen W, Chen J, Zeng P, Hou Y, Bian C, Pan S, Li Y, Liu X, Wang W, Servin B, Sayre B, Zhu B, Sweeney D, Moore R, Nie W, Shen Y, Zhao R, Zhang G, Li J, Faraut T, Womack J, Zhang Y, Kijas J, Cockett N, Xu X, Zhao S, Wang J, Wang W.

Nat Biotechnol. 2013 Feb;31(2):135-41. doi: 10.1038/nbt.2478. Epub 2012 Dec 23.

PMID:
23263233
11.

High-resolution autosomal radiation hybrid maps of the pig genome and their contribution to the genome sequence assembly.

Servin B, Faraut T, Iannuccelli N, Zelenika D, Milan D.

BMC Genomics. 2012 Nov 15;13:585. doi: 10.1186/1471-2164-13-585.

12.

Analyses of pig genomes provide insight into porcine demography and evolution.

Groenen MA, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF, Rogel-Gaillard C, Park C, Milan D, Megens HJ, Li S, Larkin DM, Kim H, Frantz LA, Caccamo M, Ahn H, Aken BL, Anselmo A, Anthon C, Auvil L, Badaoui B, Beattie CW, Bendixen C, Berman D, Blecha F, Blomberg J, Bolund L, Bosse M, Botti S, Bujie Z, Bystrom M, Capitanu B, Carvalho-Silva D, Chardon P, Chen C, Cheng R, Choi SH, Chow W, Clark RC, Clee C, Crooijmans RP, Dawson HD, Dehais P, De Sapio F, Dibbits B, Drou N, Du ZQ, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler KE, Fredholm M, Fritz E, Gilbert JG, Giuffra E, Gorodkin J, Griffin DK, Harrow JL, Hayward A, Howe K, Hu ZL, Humphray SJ, Hunt T, Hornshøj H, Jeon JT, Jern P, Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim JH, Kim KW, Kim TH, Larson G, Lee K, Lee KT, Leggett R, Lewin HA, Li Y, Liu W, Loveland JE, Lu Y, Lunney JK, Ma J, Madsen O, Mann K, Matthews L, McLaren S, Morozumi T, Murtaugh MP, Narayan J, Nguyen DT, Ni P, Oh SJ, Onteru S, Panitz F, Park EW, Park HS, Pascal G, Paudel Y, Perez-Enciso M, Ramirez-Gonzalez R, Reecy JM, Rodriguez-Zas S, Rohrer GA, Rund L, Sang Y, Schachtschneider K, Schraiber JG, Schwartz J, Scobie L, Scott C, Searle S, Servin B, Southey BR, Sperber G, Stadler P, Sweedler JV, Tafer H, Thomsen B, Wali R, Wang J, Wang J, White S, Xu X, Yerle M, Zhang G, Zhang J, Zhang J, Zhao S, Rogers J, Churcher C, Schook LB.

Nature. 2012 Nov 15;491(7424):393-8. doi: 10.1038/nature11622.

13.

A duck RH panel and its potential for assisting NGS genome assembly.

Rao M, Morisson M, Faraut T, Bardes S, Fève K, Labarthe E, Fillon V, Huang Y, Li N, Vignal A.

BMC Genomics. 2012 Sep 28;13:513. doi: 10.1186/1471-2164-13-513.

14.

Detecting long tandem duplications in genomic sequences.

Audemard E, Schiex T, Faraut T.

BMC Bioinformatics. 2012 May 8;13:83. doi: 10.1186/1471-2105-13-83.

15.

Genetic variability of transcript abundance in pig peri-mortem skeletal muscle: eQTL localized genes involved in stress response, cell death, muscle disorders and metabolism.

Liaubet L, Lobjois V, Faraut T, Tircazes A, Benne F, Iannuccelli N, Pires J, Glénisson J, Robic A, Le Roy P, Sancristobal M, Cherel P.

BMC Genomics. 2011 Nov 4;12:548. doi: 10.1186/1471-2164-12-548.

16.

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

Servin B, de Givry S, Faraut T.

Bioinformatics. 2010 Dec 15;26(24):3035-42. doi: 10.1093/bioinformatics/btq598. Epub 2010 Nov 13.

PMID:
21076149
17.

The sheep genome reference sequence: a work in progress.

International Sheep Genomics Consortium, Archibald AL, Cockett NE, Dalrymple BP, Faraut T, Kijas JW, Maddox JF, McEwan JC, Hutton Oddy V, Raadsma HW, Wade C, Wang J, Wang W, Xun X.

Anim Genet. 2010 Oct;41(5):449-53. doi: 10.1111/j.1365-2052.2010.02100.x. Review.

PMID:
20809919
18.

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

Abrouk M, Murat F, Pont C, Messing J, Jackson S, Faraut T, Tannier E, Plomion C, Cooke R, Feuillet C, Salse J.

Trends Plant Sci. 2010 Sep;15(9):479-87. doi: 10.1016/j.tplants.2010.06.001. Epub 2010 Jul 17.

PMID:
20638891
19.

Contribution of radiation hybrids to genome mapping in domestic animals.

Faraut T, de Givry S, Hitte C, Lahbib-Mansais Y, Morisson M, Milan D, Schiex T, Servin B, Vignal A, Galibert F, Yerle M.

Cytogenet Genome Res. 2009;126(1-2):21-33. doi: 10.1159/000245904. Epub 2009 Dec 9.

PMID:
20016154
20.

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

Pitel F, Faraut T, Bruneau G, Monget P.

Gen Comp Endocrinol. 2010 May 15;167(1):1-5. doi: 10.1016/j.ygcen.2009.10.006. Epub 2009 Oct 23. No abstract available.

PMID:
19854194
21.

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

Salse J, Abrouk M, Bolot S, Guilhot N, Courcelle E, Faraut T, Waugh R, Close TJ, Messing J, Feuillet C.

Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):14908-13. doi: 10.1073/pnas.0902350106. Epub 2009 Aug 13.

22.
23.

Characterization of porcine ASB6 gene and transcripts-comparison of mammalian transcripts.

Robic A, Faraut T, Liaubet L, Riquet J, Milan D, Lobjois V.

Anim Biotechnol. 2008;19(3):138-43. doi: 10.1080/10495390801984721.

PMID:
18607786
24.

Addressing chromosome evolution in the whole-genome sequence era.

Faraut T.

Chromosome Res. 2008;16(1):5-16. doi: 10.1007/s10577-007-1208-0. Review.

PMID:
18293102
25.

Narcisse: a mirror view of conserved syntenies.

Courcelle E, Beausse Y, Letort S, Stahl O, Fremez R, Ngom-Bru C, Gouzy J, Faraut T.

Nucleic Acids Res. 2008 Jan;36(Database issue):D485-90. Epub 2007 Nov 2.

26.

Genetic and haplotypic structure in 14 European and African cattle breeds.

Gautier M, Faraut T, Moazami-Goudarzi K, Navratil V, Foglio M, Grohs C, Boland A, Garnier JG, Boichard D, Lathrop GM, Gut IG, Eggen A.

Genetics. 2007 Oct;177(2):1059-70. Epub 2007 Aug 24.

27.

Alvira: comparative genomics of viral strains.

Enault F, Fremez R, Baranowski E, Faraut T.

Bioinformatics. 2007 Aug 15;23(16):2178-9. Epub 2007 Jun 5.

PMID:
17550913
28.

Phylogenetic exploration of bacterial genomic rearrangements.

Fremez R, Faraut T, Fichant G, Gouzy J, Quentin Y.

Bioinformatics. 2007 May 1;23(9):1172-4. Epub 2007 Mar 1.

PMID:
17332021
29.

A comparative genome approach to marker ordering.

Faraut T, de Givry S, Chabrier P, Derrien T, Galibert F, Hitte C, Schiex T.

Bioinformatics. 2007 Jan 15;23(2):e50-6.

PMID:
17237105
30.

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

Lahbib-Mansais Y, Mompart F, Milan D, Leroux S, Faraut T, Delcros C, Yerle M.

Genomics. 2006 Oct;88(4):504-12. Epub 2006 Jun 9.

31.

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

Cavaillès P, Sergent V, Bisanz C, Papapietro O, Colacios C, Mas M, Subra JF, Lagrange D, Calise M, Appolinaire S, Faraut T, Druet P, Saoudi A, Bessieres MH, Pipy B, Cesbron-Delauw MF, Fournié GJ.

Proc Natl Acad Sci U S A. 2006 Jan 17;103(3):744-9. Epub 2006 Jan 6.

32.

A gene-based radiation hybrid map of chicken microchromosome 14: comparison to human and alignment to the assembled chicken sequence.

Morisson M, Leroux S, Jiguet-Jiglaire C, Assaf S, Pitel F, Lagarrigue S, Bardes S, Feve K, Faraut T, Milan D, Vignal A.

Genet Sel Evol. 2005 Mar-Apr;37(2):229-51.

33.

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

Lahbib-Mansais Y, Karlskov-Mortensen P, Mompart F, Milan D, Jørgensen CB, Cirera S, Gorodkin J, Faraut T, Yerle M, Fredholm M.

Genomics. 2005 Oct;86(4):405-13.

PMID:
16111857
34.

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

Pinton A, Faraut T, Yerle M, Gruand J, Pellestor F, Ducos A.

Hum Reprod. 2005 Sep;20(9):2476-82. Epub 2005 May 5.

PMID:
15878917
35.

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

Bosak N, Yamomoto R, Fujisaki S, Faraut T, Kiuchi S, Hiraiwa H, Hayashi T, Yasue H.

Cytogenet Genome Res. 2005;108(4):317-21.

PMID:
15627751
36.

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

Morisson M, Jiguet-Jiglaire C, Leroux S, Faraut T, Bardes S, Feve K, Genet C, Pitel F, Milan D, Vignal A.

Mamm Genome. 2004 Sep;15(9):732-9.

PMID:
15389321
37.

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

Allal C, Buisson-Brenac C, Marion V, Claudel-Renard C, Faraut T, Dal Monte P, Streblow D, Record M, Davignon JL.

J Virol. 2004 Jul;78(14):7717-26.

38.

The Iccare web server: an attempt to merge sequence and mapping information for plant and animal species.

Muller C, Denis M, Gentzbittel L, Faraut T.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W429-34.

39.

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.

Bosak N, Faraut T, Mikawa S, Uenishi H, Kiuchi S, Hiraiwa H, Hayashi T, Yasue H.

Cytogenet Genome Res. 2003;102(1-4):109-15.

PMID:
14970688
40.

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

Robic A, Faraut T, Iannuccelli N, Lahbib-Mansais Y, Cantegrel V, Alexander L, Milan D.

Cytogenet Genome Res. 2003;102(1-4):100-8.

PMID:
14970687
41.

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

Morisson M, Jiguet-Jiglaire C, Lemiere A, Leroux S, Faraut T, Yerle M, Vignal A.

Br Poult Sci. 2003 Dec;44(5):797-8. No abstract available.

PMID:
14965119
42.

Enzyme-specific profiles for genome annotation: PRIAM.

Claudel-Renard C, Chevalet C, Faraut T, Kahn D.

Nucleic Acids Res. 2003 Nov 15;31(22):6633-9.

43.

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

Demeure O, Renard C, Yerle M, Faraut T, Riquet J, Robic A, Schiex T, Rink A, Milan D.

Mamm Genome. 2003 Jan;14(1):71-80.

PMID:
12532270
44.

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

Faraut T, Mermet MA, Demongeot J, Cohen O.

Cytogenet Cell Genet. 2000;88(1-2):15-21.

PMID:
10773657
45.

[Combined use of nuchal translucency, gestational age and maternal age for evaluation of the risk of trisomy 21].

Faraut T, Cans C, Althuser M, Jouk PS.

J Gynecol Obstet Biol Reprod (Paris). 1999 Sep;28(5):439-45. French.

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