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Items: 1 to 20 of 59


The conserved regulatory RNA RsaE down-regulates the arginine degradation pathway in Staphylococcus aureus.

Rochat T, Bohn C, Morvan C, Le Lam TN, Razvi F, Pain A, Toffano-Nioche C, Ponien P, Jacq A, Jacquet E, Fey PD, Gautheret D, Bouloc P.

Nucleic Acids Res. 2018 Sep 28;46(17):8803-8816. doi: 10.1093/nar/gky584.


CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins.

Couvin D, Bernheim A, Toffano-Nioche C, Touchon M, Michalik J, Néron B, Rocha EPC, Vergnaud G, Gautheret D, Pourcel C.

Nucleic Acids Res. 2018 Jul 2;46(W1):W246-W251. doi: 10.1093/nar/gky425.


A benchmark study of scoring methods for non-coding mutations.

Drubay D, Gautheret D, Michiels S.

Bioinformatics. 2018 May 15;34(10):1635-1641. doi: 10.1093/bioinformatics/bty008.


DE-kupl: exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.

Audoux J, Philippe N, Chikhi R, Salson M, Gallopin M, Gabriel M, Le Coz J, Drouineau E, Commes T, Gautheret D.

Genome Biol. 2017 Dec 28;18(1):243. doi: 10.1186/s13059-017-1372-2.


Native elongating transcript sequencing reveals global anti-correlation between sense and antisense nascent transcription in fission yeast.

Wery M, Gautier C, Descrimes M, Yoda M, Vennin-Rendos H, Migeot V, Gautheret D, Hermand D, Morillon A.

RNA. 2018 Feb;24(2):196-208. doi: 10.1261/rna.063446.117. Epub 2017 Nov 7.


Erratum: The Non-Coding RNA Journal Club: Highlights on Recent Papers-4. Non-Coding RNA 2016, 2, 9.

Gautheret D, Taube JH, Mani SA, Santulli G, Cuerda-Gil D, Slotkin RK, Zhang B, Wang Y, Salzman DW, Weidhaas JB.

Noncoding RNA. 2016 Sep 30;2(4). pii: E10. doi: 10.3390/ncrna2040010.


The Non-Coding RNA Journal Club: Highlights on Recent Papers-4.

Gautheret D, Taube JH, Mani SA, Santulli G, Cuerda-Gil D, Slotkin RK, Zhang B, Wang Y, Salzman DW, Weidhaas JB.

Noncoding RNA. 2016 Sep 21;2(3). pii: E9. doi: 10.3390/ncrna2030009.


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):379-392. 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):840-853. 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.

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