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The majority of primate-specific regulatory sequences are derived from transposable elements.
Jacques PÉ, Jeyakani J, Bourque G. Jacques PÉ, et al. PLoS Genet. 2013 May;9(5):e1003504. doi: 10.1371/journal.pgen.1003504. Epub 2013 May 9. PLoS Genet. 2013. PMID: 23675311 Free PMC article.
Dynamic deposition of histone variant H3.3 accompanies developmental remodeling of the Arabidopsis transcriptome.
Wollmann H, Holec S, Alden K, Clarke ND, Jacques PÉ, Berger F. Wollmann H, et al. Among authors: jacques pe. PLoS Genet. 2012;8(5):e1002658. doi: 10.1371/journal.pgen.1002658. Epub 2012 May 3. PLoS Genet. 2012. PMID: 22570629 Free PMC article.
Systems consequences of amplicon formation in human breast cancer.
Inaki K, Menghi F, Woo XY, Wagner JP, Jacques PÉ, Lee YF, Shreckengast PT, Soon WW, Malhotra A, Teo AS, Hillmer AM, Khng AJ, Ruan X, Ong SH, Bertrand D, Nagarajan N, Karuturi RK, Miranda AH, Liu ET. Inaki K, et al. Among authors: jacques pe. Genome Res. 2014 Oct;24(10):1559-71. doi: 10.1101/gr.164871.113. Epub 2014 Sep 3. Genome Res. 2014. PMID: 25186909 Free PMC article.
eFORGE: A Tool for Identifying Cell Type-Specific Signal in Epigenomic Data.
Breeze CE, Paul DS, van Dongen J, Butcher LM, Ambrose JC, Barrett JE, Lowe R, Rakyan VK, Iotchkova V, Frontini M, Downes K, Ouwehand WH, Laperle J, Jacques PÉ, Bourque G, Bergmann AK, Siebert R, Vellenga E, Saeed S, Matarese F, Martens JHA, Stunnenberg HG, Teschendorff AE, Herrero J, Birney E, Dunham I, Beck S. Breeze CE, et al. Among authors: jacques pe. Cell Rep. 2016 Nov 15;17(8):2137-2150. doi: 10.1016/j.celrep.2016.10.059. Cell Rep. 2016. PMID: 27851974 Free PMC article.
The retrovirus HERVH is a long noncoding RNA required for human embryonic stem cell identity.
Lu X, Sachs F, Ramsay L, Jacques PÉ, Göke J, Bourque G, Ng HH. Lu X, et al. Among authors: jacques pe. Nat Struct Mol Biol. 2014 Apr;21(4):423-5. doi: 10.1038/nsmb.2799. Epub 2014 Mar 30. Nat Struct Mol Biol. 2014. PMID: 24681886
SON connects the splicing-regulatory network with pluripotency in human embryonic stem cells.
Lu X, Göke J, Sachs F, Jacques PÉ, Liang H, Feng B, Bourque G, Bubulya PA, Ng HH. Lu X, et al. Among authors: jacques pe. Nat Cell Biol. 2013 Oct;15(10):1141-1152. doi: 10.1038/ncb2839. Epub 2013 Sep 8. Nat Cell Biol. 2013. PMID: 24013217 Free PMC article.
Recurrent Fusion Genes in Gastric Cancer: CLDN18-ARHGAP26 Induces Loss of Epithelial Integrity.
Yao F, Kausalya JP, Sia YY, Teo AS, Lee WH, Ong AG, Zhang Z, Tan JH, Li G, Bertrand D, Liu X, Poh HM, Guan P, Zhu F, Pathiraja TN, Ariyaratne PN, Rao J, Woo XY, Cai S, Mulawadi FH, Poh WT, Veeravalli L, Chan CS, Lim SS, Leong ST, Neo SC, Choi PS, Chew EG, Nagarajan N, Jacques PÉ, So JB, Ruan X, Yeoh KG, Tan P, Sung WK, Hunziker W, Ruan Y, Hillmer AM. Yao F, et al. Among authors: jacques pe. Cell Rep. 2015 Jul 14;12(2):272-85. doi: 10.1016/j.celrep.2015.06.020. Epub 2015 Jul 2. Cell Rep. 2015. PMID: 26146084
A positive feedback loop links opposing functions of P-TEFb/Cdk9 and histone H2B ubiquitylation to regulate transcript elongation in fission yeast.
Sansó M, Lee KM, Viladevall L, Jacques PÉ, Pagé V, Nagy S, Racine A, St Amour CV, Zhang C, Shokat KM, Schwer B, Robert F, Fisher RP, Tanny JC. Sansó M, et al. Among authors: jacques pe. PLoS Genet. 2012;8(8):e1002822. doi: 10.1371/journal.pgen.1002822. Epub 2012 Aug 2. PLoS Genet. 2012. PMID: 22876190 Free PMC article.
Yeast RNase III triggers polyadenylation-independent transcription termination.
Ghazal G, Gagnon J, Jacques PE, Landry JR, Robert F, Elela SA. Ghazal G, et al. Among authors: jacques pe. Mol Cell. 2009 Oct 9;36(1):99-109. doi: 10.1016/j.molcel.2009.07.029. Mol Cell. 2009. PMID: 19818713
Genome-wide replication-independent histone H3 exchange occurs predominantly at promoters and implicates H3 K56 acetylation and Asf1.
Rufiange A, Jacques PE, Bhat W, Robert F, Nourani A. Rufiange A, et al. Among authors: jacques pe. Mol Cell. 2007 Aug 3;27(3):393-405. doi: 10.1016/j.molcel.2007.07.011. Mol Cell. 2007. PMID: 17679090
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