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Reference-free transcriptome exploration reveals novel RNAs for prostate cancer diagnosis.

Pinskaya M, Saci Z, Gallopin M, Gabriel M, Nguyen HT, Firlej V, Descrimes M, Rapinat A, Gentien D, Taille A, Londoño-Vallejo A, Allory Y, Gautheret D, Morillon A.

Life Sci Alliance. 2019 Nov 15;2(6). pii: e201900449. doi: 10.26508/lsa.201900449. Print 2019 Dec.


Endogenous RNAi pathway evolutionarily shapes the destiny of the antisense lncRNAs transcriptome.

Szachnowski U, Andus S, Foretek D, Morillon A, Wery M.

Life Sci Alliance. 2019 Aug 28;2(5). pii: e201900407. doi: 10.26508/lsa.201900407. Print 2019 Oct.


Examining the predictive accuracy of metabolomics for small-for-gestational-age babies: a systematic review.

Leite DFB, Morillon AC, Melo Júnior EF, Souza RT, McCarthy FP, Khashan A, Baker P, Kenny LC, Cecatti JG.

BMJ Open. 2019 Aug 10;9(8):e031238. doi: 10.1136/bmjopen-2019-031238.


Bridging the gap between reference and real transcriptomes.

Morillon A, Gautheret D.

Genome Biol. 2019 Jun 3;20(1):112. doi: 10.1186/s13059-019-1710-7.


Transcription-dependent spreading of the Dal80 yeast GATA factor across the body of highly expressed genes.

Ronsmans A, Wery M, Szachnowski U, Gautier C, Descrimes M, Dubois E, Morillon A, Georis I.

PLoS Genet. 2019 Feb 28;15(2):e1007999. doi: 10.1371/journal.pgen.1007999. eCollection 2019 Feb.


The anti-cancer drug 5-fluorouracil affects cell cycle regulators and potential regulatory long non-coding RNAs in yeast.

Xie B, Becker E, Stuparevic I, Wery M, Szachnowski U, Morillon A, Primig M.

RNA Biol. 2019 Jun;16(6):727-741. doi: 10.1080/15476286.2019.1581596. Epub 2019 Mar 20.


Metabolomics for predicting fetal growth restriction: protocol for a systematic review and meta-analysis.

Leite DFB, Morillon AC, Melo Júnior EF, Souza RT, Khashan AS, Baker PN, Kenny LC, Cecatti JG.

BMJ Open. 2018 Dec 6;8(12):e022743. doi: 10.1136/bmjopen-2018-022743.


Expanding heterochromatin reveals discrete subtelomeric domains delimited by chromatin landscape transitions.

Hocher A, Ruault M, Kaferle P, Descrimes M, Garnier M, Morillon A, Taddei A.

Genome Res. 2018 Dec;28(12):1867-1881. doi: 10.1101/gr.236554.118. Epub 2018 Oct 24.


Bases of antisense lncRNA-associated regulation of gene expression in fission yeast.

Wery M, Gautier C, Descrimes M, Yoda M, Migeot V, Hermand D, Morillon A.

PLoS Genet. 2018 Jul 5;14(7):e1007465. doi: 10.1371/journal.pgen.1007465. eCollection 2018 Jul.


Correction to: Stage-dependent piRNAs in chicken implicated roles in modulating male germ cell development.

Chang KW, Tseng YT, Chen YC, Yu CY, Liao HF, Chen YC, Tu YE, Wu SC, Liu IH, Pinskaya M, Morillon A, Pain B, Lin SP.

BMC Genomics. 2018 Jun 19;19(1):480. doi: 10.1186/s12864-018-4863-y.


Methylation of Histone H3 K4 Mediates Association of the Isw1p ATPase with Chromatin.

Santos-Rosa H, Schneider R, Bernstein BE, Karabetsou N, Morillon A, Weise C, Schreiber SL, Mellor J, Kouzarides T.

Mol Cell. 2018 Jun 7;70(5):983. doi: 10.1016/j.molcel.2018.05.012. Epub 2018 Jun 7. No abstract available.


Stage-dependent piRNAs in chicken implicated roles in modulating male germ cell development.

Chang KW, Tseng YT, Chen YC, Yu CY, Liao HF, Chen YC, Tu YE, Wu SC, Liu IH, Pinskaya M, Morillon A, Pain B, Lin SP.

BMC Genomics. 2018 Jun 1;19(1):425. doi: 10.1186/s12864-018-4820-9. Erratum in: BMC Genomics. 2018 Jun 19;19(1):480.


Histone deacetylation promotes transcriptional silencing at facultative heterochromatin.

Watts BR, Wittmann S, Wery M, Gautier C, Kus K, Birot A, Heo DH, Kilchert C, Morillon A, Vasiljeva L.

Nucleic Acids Res. 2018 Jun 20;46(11):5426-5440. doi: 10.1093/nar/gky232.


Diversification of human plasmacytoid predendritic cells in response to a single stimulus.

Alculumbre SG, Saint-André V, Di Domizio J, Vargas P, Sirven P, Bost P, Maurin M, Maiuri P, Wery M, Roman MS, Savey L, Touzot M, Terrier B, Saadoun D, Conrad C, Gilliet M, Morillon A, Soumelis V.

Nat Immunol. 2018 Jan;19(1):63-75. doi: 10.1038/s41590-017-0012-z. Epub 2017 Dec 4.


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.


History, Discovery, and Classification of lncRNAs.

Jarroux J, Morillon A, Pinskaya M.

Adv Exp Med Biol. 2017;1008:1-46. doi: 10.1007/978-981-10-5203-3_1. Review.


LncRNAs, lost in translation or licence to regulate?

de Andres-Pablo A, Morillon A, Wery M.

Curr Genet. 2017 Feb;63(1):29-33. doi: 10.1007/s00294-016-0615-1. Epub 2016 May 26. Review.


Prognostic value of a newly identified MALAT1 alternatively spliced transcript in breast cancer.

Meseure D, Vacher S, Lallemand F, Alsibai KD, Hatem R, Chemlali W, Nicolas A, De Koning L, Pasmant E, Callens C, Lidereau R, Morillon A, Bieche I.

Br J Cancer. 2016 Jun 14;114(12):1395-404. doi: 10.1038/bjc.2016.123. Epub 2016 May 12.


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.


Long Noncoding RNAs as New Architects in Cancer Epigenetics, Prognostic Biomarkers, and Potential Therapeutic Targets.

Meseure D, Drak Alsibai K, Nicolas A, Bieche I, Morillon A.

Biomed Res Int. 2015;2015:320214. doi: 10.1155/2015/320214. Epub 2015 Sep 13. 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.


Cytoplasmic Control of Sense-Antisense mRNA Pairs.

Sinturel F, Navickas A, Wery M, Descrimes M, Morillon A, Torchet C, Benard L.

Cell Rep. 2015 Sep 22;12(11):1853-64. doi: 10.1016/j.celrep.2015.08.016. Epub 2015 Sep 3.


Resection is responsible for loss of transcription around a double-strand break in Saccharomyces cerevisiae.

Manfrini N, Clerici M, Wery M, Colombo CV, Descrimes M, Morillon A, d'Adda di Fagagna F, Longhese MP.

Elife. 2015 Jul 31;4. doi: 10.7554/eLife.08942.


Dnmt3l-knockout donor cells improve somatic cell nuclear transfer reprogramming efficiency.

Liao HF, Mo CF, Wu SC, Cheng DH, Yu CY, Chang KW, Kao TH, Lu CW, Pinskaya M, Morillon A, Lin SS, Cheng WT, Bourc'his D, Bestor T, Sung LY, Lin SP.

Reproduction. 2015 Oct;150(4):245-56. doi: 10.1530/REP-15-0031. Epub 2015 Jul 9.


Expression of Subtelomeric lncRNAs Links Telomeres Dynamics to RNA Decay in S. cerevisiae.

Kwapisz M, Ruault M, van Dijk E, Gourvennec S, Descrimes M, Taddei A, Morillon A.

Noncoding RNA. 2015 Jul 3;1(2):94-126. doi: 10.3390/ncrna1020094.


RNA-processing proteins regulate Mec1/ATR activation by promoting generation of RPA-coated ssDNA.

Manfrini N, Trovesi C, Wery M, Martina M, Cesena D, Descrimes M, Morillon A, d'Adda di Fagagna F, Longhese MP.

EMBO Rep. 2015 Feb;16(2):221-31. doi: 10.15252/embr.201439458. Epub 2014 Dec 19.


PHD and TFIIS-Like domains of the Bye1 transcription factor determine its multivalent genomic distribution.

Pinskaya M, Ghavi-Helm Y, Mariotte-Labarre S, Morillon A, Soutourina J, Werner M.

PLoS One. 2014 Jul 16;9(7):e102464. doi: 10.1371/journal.pone.0102464. eCollection 2014.


Editorial for "Diversity of the non-coding transcriptomes revealed by RNA-seq technologies".

Morillon A, Andrau JC.

Methods. 2013 Sep 1;63(1):1-2. doi: 10.1016/j.ymeth.2013.08.030. No abstract available.


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.


Pervasive transcription - Lessons from yeast.

Tisseur M, Kwapisz M, Morillon A.

Biochimie. 2011 Nov;93(11):1889-96. doi: 10.1016/j.biochi.2011.07.001. Epub 2011 Jul 12. Review.


The reality of pervasive transcription.

Clark MB, Amaral PP, Schlesinger FJ, Dinger ME, Taft RJ, Rinn JL, Ponting CP, Stadler PF, Morris KV, Morillon A, Rozowsky JS, Gerstein MB, Wahlestedt C, Hayashizaki Y, Carninci P, Gingeras TR, Mattick JS.

PLoS Biol. 2011 Jul;9(7):e1000625; discussion e1001102. doi: 10.1371/journal.pbio.1000625. Epub 2011 Jul 12. No abstract available.


XUTs are a class of Xrn1-sensitive antisense regulatory non-coding RNA in yeast.

van Dijk EL, Chen CL, d'Aubenton-Carafa Y, Gourvennec S, Kwapisz M, Roche V, Bertrand C, Silvain M, Legoix-Né P, Loeillet S, Nicolas A, Thermes C, Morillon A.

Nature. 2011 Jun 22;475(7354):114-7. doi: 10.1038/nature10118.


A viable hypomorphic allele of the essential IMP3 gene reveals novel protein functions in Saccharomyces cerevisiae.

Cosnier B, Kwapisz M, Hatin I, Namy O, Hermann-Le Denmat S, Morillon A, Rousset JP, Fabret C.

PLoS One. 2011 Apr 29;6(4):e19500. doi: 10.1371/journal.pone.0019500. Erratum in: PLoS One. 2011;6(5). doi:10.1371/annotation/18c67950-0fcc-4ba8-aa59-5d6a3e060c68.


Noncoding RNAs in gene regulation.

Wery M, Kwapisz M, Morillon A.

Wiley Interdiscip Rev Syst Biol Med. 2011 Nov-Dec;3(6):728-38. doi: 10.1002/wsbm.148. Epub 2011 Mar 4. Review.


Pervasive transcription constitutes a new level of eukaryotic genome regulation.

Berretta J, Morillon A.

EMBO Rep. 2009 Sep;10(9):973-82. doi: 10.1038/embor.2009.181. Epub 2009 Aug 14. Review.


Histone H3 lysine 4 di-methylation: a novel mark for transcriptional fidelity?

Pinskaya M, Morillon A.

Epigenetics. 2009 Jul 1;4(5):302-6. Epub 2009 Jul 25. Review.


H3 lysine 4 di- and tri-methylation deposited by cryptic transcription attenuates promoter activation.

Pinskaya M, Gourvennec S, Morillon A.

EMBO J. 2009 Jun 17;28(12):1697-707. doi: 10.1038/emboj.2009.108. Epub 2009 Apr 30.


Nucleosome remodeling and transcriptional repression are distinct functions of Isw1 in Saccharomyces cerevisiae.

Pinskaya M, Nair A, Clynes D, Morillon A, Mellor J.

Mol Cell Biol. 2009 May;29(9):2419-30. doi: 10.1128/MCB.01050-08. Epub 2009 Mar 9.


A cryptic unstable transcript mediates transcriptional trans-silencing of the Ty1 retrotransposon in S. cerevisiae.

Berretta J, Pinskaya M, Morillon A.

Genes Dev. 2008 Mar 1;22(5):615-26. doi: 10.1101/gad.458008.


Is histone loss a common feature of DNA metabolism regulation?

Morillon A.

Biochem Cell Biol. 2006 Aug;84(4):450-62. Review.


Severe adenine starvation activates Ty1 transcription and retrotransposition in Saccharomyces cerevisiae.

Todeschini AL, Morillon A, Springer M, Lesage P.

Mol Cell Biol. 2005 Sep;25(17):7459-72.


Dynamic lysine methylation on histone H3 defines the regulatory phase of gene transcription.

Morillon A, Karabetsou N, Nair A, Mellor J.

Mol Cell. 2005 Jun 10;18(6):723-34.


Gene loops juxtapose promoters and terminators in yeast.

O'Sullivan JM, Tan-Wong SM, Morillon A, Lee B, Coles J, Mellor J, Proudfoot NJ.

Nat Genet. 2004 Sep;36(9):1014-8. Epub 2004 Aug 15.


ISWI complexes in Saccharomyces cerevisiae.

Mellor J, Morillon A.

Biochim Biophys Acta. 2004 Mar 15;1677(1-3):100-12. Review.


Methylation of histone H3 K4 mediates association of the Isw1p ATPase with chromatin.

Santos-Rosa H, Schneider R, Bernstein BE, Karabetsou N, Morillon A, Weise C, Schreiber SL, Mellor J, Kouzarides T.

Mol Cell. 2003 Nov;12(5):1325-32. Erratum in: Mol Cell. 2018 Jun 7;70(5):983.


Isw1 chromatin remodeling ATPase coordinates transcription elongation and termination by RNA polymerase II.

Morillon A, Karabetsou N, O'Sullivan J, Kent N, Proudfoot N, Mellor J.

Cell. 2003 Nov 14;115(4):425-35.


Regulation of elongating RNA polymerase II by forkhead transcription factors in yeast.

Morillon A, O'Sullivan J, Azad A, Proudfoot N, Mellor J.

Science. 2003 Apr 18;300(5618):492-5.


Strains isogenic to S288C used in the yeast genome sequencing programme carry a functional KSS1 gene.

Morillon A, Springer M, Lesage P.

Curr Genet. 2001 Jul;39(5-6):291-6.


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