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Items: 1 to 20 of 78


Detection of generic differential RNA processing events from RNA-seq data.

Tran Vdu T, Souiai O, Romero-Barrios N, Crespi M, Gautheret D.

RNA Biol. 2016;13(1):59-67. doi: 10.1080/15476286.2015.1118604.


Nonsense-Mediated Decay Restricts LncRNA Levels in Yeast Unless Blocked by Double-Stranded RNA Structure.

Wery M, Descrimes M, Vogt N, Dallongeville AS, Gautheret D, Morillon A.

Mol Cell. 2016 Feb 4;61(3):379-92. doi: 10.1016/j.molcel.2015.12.020. Epub 2016 Jan 21.


A Dual Model for Prioritizing Cancer Mutations in the Non-coding Genome Based on Germline and Somatic Events.

Li J, Poursat MA, Drubay D, Motz A, Saci Z, Morillon A, Michiels S, Gautheret D.

PLoS Comput Biol. 2015 Nov 20;11(11):e1004583. doi: 10.1371/journal.pcbi.1004583. eCollection 2015 Nov.


New Functional Signatures for Understanding Melanoma Biology from Tumor Cell Lineage-Specific Analysis.

Rambow F, Job B, Petit V, Gesbert F, Delmas V, Seberg H, Meurice G, Van Otterloo E, Dessen P, Robert C, Gautheret D, Cornell RA, Sarasin A, Larue L.

Cell Rep. 2015 Oct 27;13(4):840-53. doi: 10.1016/j.celrep.2015.09.037. Epub 2015 Oct 17.


Mining the coding and non-coding genome for cancer drivers.

Li J, Drubay D, Michiels S, Gautheret D.

Cancer Lett. 2015 Dec 28;369(2):307-15. doi: 10.1016/j.canlet.2015.09.015. Epub 2015 Oct 1. Review.


VING: a software for visualization of deep sequencing signals.

Descrimes M, Ben Zouari Y, Wery M, Legendre R, Gautheret D, Morillon A.

BMC Res Notes. 2015 Sep 7;8:419. doi: 10.1186/s13104-015-1404-5.


Revisiting the structure/function relationships of H/ACA(-like) RNAs: a unified model for Euryarchaea and Crenarchaea.

Toffano-Nioche C, Gautheret D, Leclerc F.

Nucleic Acids Res. 2015 Sep 18;43(16):7744-61. doi: 10.1093/nar/gkv756. Epub 2015 Aug 3.


An assessment of bacterial small RNA target prediction programs.

Pain A, Ott A, Amine H, Rochat T, Bouloc P, Gautheret D.

RNA Biol. 2015;12(5):509-13. doi: 10.1080/15476286.2015.1020269. Review.


In plants, decapping prevents RDR6-dependent production of small interfering RNAs from endogenous mRNAs.

Martínez de Alba AE, Moreno AB, Gabriel M, Mallory AC, Christ A, Bounon R, Balzergue S, Aubourg S, Gautheret D, Crespi MD, Vaucheret H, Maizel A.

Nucleic Acids Res. 2015 Mar 11;43(5):2902-13. doi: 10.1093/nar/gkv119. Epub 2015 Feb 18.


Genome-wide translational changes induced by the prion [PSI+].

Baudin-Baillieu A, Legendre R, Kuchly C, Hatin I, Demais S, Mestdagh C, Gautheret D, Namy O.

Cell Rep. 2014 Jul 24;8(2):439-48. doi: 10.1016/j.celrep.2014.06.036. Epub 2014 Jul 17.


Identification of large intergenic non-coding RNAs in bovine muscle using next-generation transcriptomic sequencing.

Billerey C, Boussaha M, Esquerré D, Rebours E, Djari A, Meersseman C, Klopp C, Gautheret D, Rocha D.

BMC Genomics. 2014 Jun 19;15:499. doi: 10.1186/1471-2164-15-499.


Acquired initiating mutations in early hematopoietic cells of CLL patients.

Damm F, Mylonas E, Cosson A, Yoshida K, Della Valle V, Mouly E, Diop M, Scourzic L, Shiraishi Y, Chiba K, Tanaka H, Miyano S, Kikushige Y, Davi F, Lambert J, Gautheret D, Merle-Béral H, Sutton L, Dessen P, Solary E, Akashi K, Vainchenker W, Mercher T, Droin N, Ogawa S, Nguyen-Khac F, Bernard OA.

Cancer Discov. 2014 Sep;4(9):1088-101. doi: 10.1158/2159-8290.CD-14-0104. Epub 2014 Jun 11.


RNA at 92 °C: the non-coding transcriptome of the hyperthermophilic archaeon Pyrococcus abyssi.

Toffano-Nioche C, Ott A, Crozat E, Nguyen AN, Zytnicki M, Leclerc F, Forterre P, Bouloc P, Gautheret D.

RNA Biol. 2013 Jul;10(7):1211-20. doi: 10.4161/rna.25567. Epub 2013 Jul 2.


Detection of non-coding RNA in bacteria and archaea using the DETR'PROK Galaxy pipeline.

Toffano-Nioche C, Luo Y, Kuchly C, Wallon C, Steinbach D, Zytnicki M, Jacq A, Gautheret D.

Methods. 2013 Sep 1;63(1):60-5. doi: 10.1016/j.ymeth.2013.06.003. Epub 2013 Jun 25.


A universal RNA structural motif docking the elbow of tRNA in the ribosome, RNAse P and T-box leaders.

Lehmann J, Jossinet F, Gautheret D.

Nucleic Acids Res. 2013 May 1;41(10):5494-502. doi: 10.1093/nar/gkt219. Epub 2013 Apr 10.


Zinc-mediated RNA fragmentation allows robust transcript reassembly upon whole transcriptome RNA-Seq.

Wery M, Descrimes M, Thermes C, Gautheret D, Morillon A.

Methods. 2013 Sep 1;63(1):25-31. doi: 10.1016/j.ymeth.2013.03.009. Epub 2013 Mar 21.


Transcriptomic profiling of the oyster pathogen Vibrio splendidus opens a window on the evolutionary dynamics of the small RNA repertoire in the Vibrio genus.

Toffano-Nioche C, Nguyen AN, Kuchly C, Ott A, Gautheret D, Bouloc P, Jacq A.

RNA. 2012 Dec;18(12):2201-19. doi: 10.1261/rna.033324.112. Epub 2012 Oct 24.


Characterization of novel genomic alterations and therapeutic approaches using acute megakaryoblastic leukemia xenograft models.

Thiollier C, Lopez CK, Gerby B, Ignacimouttou C, Poglio S, Duffourd Y, Guégan J, Rivera-Munoz P, Bluteau O, Mabialah V, Diop M, Wen Q, Petit A, Bauchet AL, Reinhardt D, Bornhauser B, Gautheret D, Lecluse Y, Landman-Parker J, Radford I, Vainchenker W, Dastugue N, de Botton S, Dessen P, Bourquin JP, Crispino JD, Ballerini P, Bernard OA, Pflumio F, Mercher T.

J Exp Med. 2012 Oct 22;209(11):2017-31. doi: 10.1084/jem.20121343. Epub 2012 Oct 8.


BRASERO: A Resource for Benchmarking RNA Secondary Structure Comparison Algorithms.

Allali J, Saule C, Chauve C, d'Aubenton-Carafa Y, Denise A, Drevet C, Ferraro P, Gautheret D, Herrbach C, Leclerc F, de Monte A, Ouangraoua A, Sagot MF, Termier M, Thermes C, Touzet H.

Adv Bioinformatics. 2012;2012:893048. doi: 10.1155/2012/893048. Epub 2012 May 23.


NAPP: the Nucleic Acid Phylogenetic Profile Database.

Ott A, Idali A, Marchais A, Gautheret D.

Nucleic Acids Res. 2012 Jan;40(Database issue):D205-9. doi: 10.1093/nar/gkr807. Epub 2011 Oct 8.

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