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Volumn 35, Issue 19, 2016, Pages 2542-2546

Onco-exaptation of an endogenous retroviral LTR drives IRF5 expression in Hodgkin lymphoma

Author keywords

[No Author keywords available]

Indexed keywords

INTERFERON REGULATORY FACTOR 5; MESSENGER RNA; INTERFERON REGULATORY FACTOR; IRF5 PROTEIN, HUMAN;

EID: 84939458000     PISSN: 09509232     EISSN: 14765594     Source Type: Journal    
DOI: 10.1038/onc.2015.308     Document Type: Article
Times cited : (84)

References (35)
  • 2
    • 84867050577 scopus 로고    scopus 로고
    • Transposable elements: An abundant and natural source of regulatory sequences for host genes
    • Rebollo R, Romanish MT, Mager DL. Transposable elements: an abundant and natural source of regulatory sequences for host genes. Annu Rev Genet 2012; 46: 21-42.
    • (2012) Annu Rev Genet , vol.46 , pp. 21-42
    • Rebollo, R.1    Romanish, M.T.2    Mager, D.L.3
  • 3
    • 84866030009 scopus 로고    scopus 로고
    • C-GATE-catalogue of genes affected by transposable elements
    • Rebollo R, Farivar S, Mager DL. C-GATE-catalogue of genes affected by transposable elements. Mob DNA 2012; 3: 9.
    • (2012) Mob DNA , vol.3 , pp. 9
    • Rebollo, R.1    Farivar, S.2    Mager, D.L.3
  • 4
    • 84869881863 scopus 로고    scopus 로고
    • Transposable elements reveal a stem cell-specific class of long noncoding RNAs
    • Kelley D, Rinn J. Transposable elements reveal a stem cell-specific class of long noncoding RNAs. Genome Biol 2012; 13: R107.
    • (2012) Genome Biol , vol.13 , pp. R107
    • Kelley, D.1    Rinn, J.2
  • 5
    • 84876864345 scopus 로고    scopus 로고
    • Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs
    • Kapusta A, Kronenberg Z, Lynch VJ, Zhuo X, Ramsay L, Bourque G et al. Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs. PLoS Genet 2013; 9: e1003470.
    • (2013) PLoS Genet , vol.9
    • Kapusta, A.1    Kronenberg, Z.2    Lynch, V.J.3    Zhuo, X.4    Ramsay, L.5    Bourque, G.6
  • 6
    • 84879611157 scopus 로고    scopus 로고
    • DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape
    • Xie M, Hong C, Zhang B, Lowdon RF, Xing X, Li D et al. DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape. Nat Genet 2013; 45: 836-841.
    • (2013) Nat Genet , vol.45 , pp. 836-841
    • Xie, M.1    Hong, C.2    Zhang, B.3    Lowdon, R.F.4    Xing, X.5    Li, D.6
  • 7
    • 33947303168 scopus 로고    scopus 로고
    • Transposable elements and the epigenetic regulation of the genome
    • Slotkin RK, Martienssen R. Transposable elements and the epigenetic regulation of the genome. Nat Rev Genet 2007; 8: 272-285.
    • (2007) Nat Rev Genet , vol.8 , pp. 272-285
    • Slotkin, R.K.1    Martienssen, R.2
  • 8
    • 77954682753 scopus 로고    scopus 로고
    • DNA hypomethylation in cancer: Epigenetic scars of a neoplastic journey
    • De Smet C, Loriot A. DNA hypomethylation in cancer: epigenetic scars of a neoplastic journey. Epigenetics 2010; 5: 206-213.
    • (2010) Epigenetics , vol.5 , pp. 206-213
    • De Smet, C.1    Loriot, A.2
  • 9
    • 77952190003 scopus 로고    scopus 로고
    • Derepression of an endogenous long terminal repeat activates the CSF1R proto-oncogene in human lymphoma
    • 1p following 579
    • Lamprecht B, Walter K, Kreher S, Kumar R, Hummel M, Lenze D et al. Derepression of an endogenous long terminal repeat activates the CSF1R proto-oncogene in human lymphoma. Nat Med 2010; 16: 571-579 1p following 579.
    • (2010) Nat Med , vol.16 , pp. 571-579
    • Lamprecht, B.1    Walter, K.2    Kreher, S.3    Kumar, R.4    Hummel, M.5    Lenze, D.6
  • 10
    • 36448994707 scopus 로고    scopus 로고
    • Recent insights into the biology of Hodgkin lymphoma: Unraveling the mysteries of the Reed-Sternberg cell
    • Roullet MR, Bagg A. Recent insights into the biology of Hodgkin lymphoma: unraveling the mysteries of the Reed-Sternberg cell. Expert Rev Mol Diagn 2007; 7: 805-820.
    • (2007) Expert Rev Mol Diagn , vol.7 , pp. 805-820
    • Roullet, M.R.1    Bagg, A.2
  • 11
    • 84868587140 scopus 로고    scopus 로고
    • Gene expression profiling of microdissected Hodgkin Reed-Sternberg cells correlates with treatment outcome in classical Hodgkin lymphoma
    • Steidl C, Diepstra A, Lee T, Chan FC, Farinha P, Tan K et al. Gene expression profiling of microdissected Hodgkin Reed-Sternberg cells correlates with treatment outcome in classical Hodgkin lymphoma. Blood 2012; 120: 3530-3540.
    • (2012) Blood , vol.120 , pp. 3530-3540
    • Steidl, C.1    Diepstra, A.2    Lee, T.3    Chan, F.C.4    Farinha, P.5    Tan, K.6
  • 12
    • 84906688503 scopus 로고    scopus 로고
    • Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma
    • Lock FE, Rebollo R, Miceli-Royer K, Gagnier L, Kuah S, Babaian A et al. Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma. Proc Natl Acad Sci USA 2014; 111: E3534-E3543.
    • (2014) Proc Natl Acad Sci USA , vol.111 , pp. E3534-E3543
    • Lock, F.E.1    Rebollo, R.2    Miceli-Royer, K.3    Gagnier, L.4    Kuah, S.5    Babaian, A.6
  • 13
    • 79957844585 scopus 로고    scopus 로고
    • DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs
    • Karimi MM, Goyal P, Maksakova IA, Bilenky M, Leung D, Tang JX et al. DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs. Cell Stem Cell 2011; 8: 676-687.
    • (2011) Cell Stem Cell , vol.8 , pp. 676-687
    • Karimi, M.M.1    Goyal, P.2    Maksakova, I.A.3    Bilenky, M.4    Leung, D.5    Tang, J.X.6
  • 14
    • 84903138867 scopus 로고    scopus 로고
    • IRF5-mediated signaling and implications for SLE
    • Lazzari E, Jefferies CA. IRF5-mediated signaling and implications for SLE. Clin Immunol 2014; 153: 343-352.
    • (2014) Clin Immunol , vol.153 , pp. 343-352
    • Lazzari, E.1    Jefferies, C.A.2
  • 15
    • 84908075195 scopus 로고    scopus 로고
    • Mapping of transcription factor motifs in active chromatin identifies IRF5 as key regulator in classical Hodgkin lymphoma
    • Kreher S, Bouhlel MA, Cauchy P, Lamprecht B, Li S, Grau M et al. Mapping of transcription factor motifs in active chromatin identifies IRF5 as key regulator in classical Hodgkin lymphoma. Proc Natl Acad Sci USA 2014; 111: E4513-E4522.
    • (2014) Proc Natl Acad Sci USA , vol.111 , pp. E4513-E4522
    • Kreher, S.1    Bouhlel, M.A.2    Cauchy, P.3    Lamprecht, B.4    Li, S.5    Grau, M.6
  • 16
    • 84919349611 scopus 로고    scopus 로고
    • The mutational landscape of Hodgkin lymphoma cell lines determined by whole-exome sequencing
    • Liu Y, Abdul Razak FR, Terpstra M, Chan FC, Saber A, Nijland M et al. The mutational landscape of Hodgkin lymphoma cell lines determined by whole-exome sequencing. Leukemia 2014; 28: 2248-2251.
    • (2014) Leukemia , vol.28 , pp. 2248-2251
    • Liu, Y.1    Abdul Razak, F.R.2    Terpstra, M.3    Chan, F.C.4    Saber, A.5    Nijland, M.6
  • 18
    • 84890341801 scopus 로고    scopus 로고
    • Four promoters of IRF5 respond distinctly to stimuli and are affected by autoimmunerisk polymorphisms
    • Clark DN, Read RD, Mayhew V, Petersen SC, Argueta LB, Stutz LA et al. Four promoters of IRF5 respond distinctly to stimuli and are affected by autoimmunerisk polymorphisms. Front Immunol 2013; 4: 360.
    • (2013) Front Immunol , vol.4 , pp. 360
    • Clark, D.N.1    Read, R.D.2    Mayhew, V.3    Petersen, S.C.4    Argueta, L.B.5    Stutz, L.A.6
  • 20
    • 0022385724 scopus 로고
    • Retroviral DNA integration
    • Panganiban AT. Retroviral DNA integration. Cell 1985; 42: 5-6.
    • (1985) Cell , vol.42 , pp. 5-6
    • Panganiban, A.T.1
  • 21
    • 20444368020 scopus 로고    scopus 로고
    • Two discrete promoters regulate the alternatively spliced human interferon regulatory factor-5 isoforms. Multiple isoforms with distinct cell type-specific expression, localization, regulation, and function
    • Mancl ME, Hu G, Sangster-Guity N, Olshalsky SL, Hoops K, Fitzgerald-Bocarsly P et al. Two discrete promoters regulate the alternatively spliced human interferon regulatory factor-5 isoforms. Multiple isoforms with distinct cell type-specific expression, localization, regulation, and function. J Biol Chem 2005; 280: 21078-21090.
    • (2005) J Biol Chem , vol.280 , pp. 21078-21090
    • Mancl, M.E.1    Hu, G.2    Sangster-Guity, N.3    Olshalsky, S.L.4    Hoops, K.5    Fitzgerald-Bocarsly, P.6
  • 22
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet 2000; 16: 276-277.
    • (2000) Trends Genet , vol.16 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 24
    • 84880335244 scopus 로고    scopus 로고
    • VlincRNAs controlled by retroviral elements are a hallmark of pluripotency and cancer
    • St Laurent G, Shtokalo D, Dong B, Tackett MR, Fan X, Lazorthes S et al. VlincRNAs controlled by retroviral elements are a hallmark of pluripotency and cancer. Genome Biol 2013; 14: R73.
    • (2013) Genome Biol , vol.14 , pp. R73
    • St Laurent, G.1    Shtokalo, D.2    Dong, B.3    Tackett, M.R.4    Fan, X.5    Lazorthes, S.6
  • 25
    • 84895494085 scopus 로고    scopus 로고
    • Hypomethylation of long interspersed nuclear element-1 (LINE-1) leads to activation of proto-oncogenes in human colorectal cancer metastasis
    • Hur K, Cejas P, Feliu J, Moreno-Rubio J, Burgos E, Boland CR et al. Hypomethylation of long interspersed nuclear element-1 (LINE-1) leads to activation of proto-oncogenes in human colorectal cancer metastasis. Gut 2014; 63: 635-646.
    • (2014) Gut , vol.63 , pp. 635-646
    • Hur, K.1    Cejas, P.2    Feliu, J.3    Moreno-Rubio, J.4    Burgos, E.5    Boland, C.R.6
  • 26
    • 77952414230 scopus 로고    scopus 로고
    • Hypomethylation of a LINE-1 promoter activates an alternate transcript of the MET oncogene in bladders with cancer
    • Wolff EM, Byun H-M, Han HF, Sharma S, Nichols PW, Siegmund KD et al. Hypomethylation of a LINE-1 promoter activates an alternate transcript of the MET oncogene in bladders with cancer. PLoS Genet 2010; 6: e1000917.
    • (2010) PLoS Genet , vol.6
    • Wolff, E.M.1    Byun, H.-M.2    Han, H.F.3    Sharma, S.4    Nichols, P.W.5    Siegmund, K.D.6
  • 27
    • 78049349212 scopus 로고    scopus 로고
    • Demethylation of a LINE-1 antisense promoter in the cMet locus impairs Met signalling through induction of illegitimate transcription
    • Weber B, Kimhi S, Howard G, Eden A, Lyko F. Demethylation of a LINE-1 antisense promoter in the cMet locus impairs Met signalling through induction of illegitimate transcription. Oncogene 2010; 29: 5775-5784.
    • (2010) Oncogene , vol.29 , pp. 5775-5784
    • Weber, B.1    Kimhi, S.2    Howard, G.3    Eden, A.4    Lyko, F.5
  • 28
    • 84876996918 scopus 로고    scopus 로고
    • TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
    • Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, Salzberg SL. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol 2013; 14: R36.
    • (2013) Genome Biol , vol.14 , pp. R36
    • Kim, D.1    Pertea, G.2    Trapnell, C.3    Pimentel, H.4    Kelley, R.5    Salzberg, S.L.6
  • 29
    • 77952123055 scopus 로고    scopus 로고
    • Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
    • Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 2010; 28: 511-515.
    • (2010) Nat Biotechnol , vol.28 , pp. 511-515
    • Trapnell, C.1    Williams, B.A.2    Pertea, G.3    Mortazavi, A.4    Kwan, G.5    Van Baren, M.J.6
  • 30
    • 80053454411 scopus 로고    scopus 로고
    • Retrotransposon-induced heterochromatin spreading in the mouse revealed by insertional polymorphisms
    • Rebollo R, Karimi MM, Bilenky M, Gagnier L, Miceli-Royer K, Zhang Y et al. Retrotransposon-induced heterochromatin spreading in the mouse revealed by insertional polymorphisms. PLoS Genet 2011; 7: e1002301.
    • (2011) PLoS Genet , vol.7
    • Rebollo, R.1    Karimi, M.M.2    Bilenky, M.3    Gagnier, L.4    Miceli-Royer, K.5    Zhang, Y.6
  • 31
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead B, Salzberg SL. Fast gapped-read alignment with Bowtie 2. Nat Methods 2012; 9: 357-359.
    • (2012) Nat Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 32
    • 66849142132 scopus 로고    scopus 로고
    • A novel protein isoform of the multicopy human NAIP gene derives from intragenic Alu SINE promoters
    • Romanish MT, Nakamura H, Lai CB, Wang Y, Mager DL. A novel protein isoform of the multicopy human NAIP gene derives from intragenic Alu SINE promoters. PLoS One 2009; 4: e5761.
    • (2009) PLoS One , vol.4
    • Romanish, M.T.1    Nakamura, H.2    Lai, C.B.3    Wang, Y.4    Mager, D.L.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.