My Bibliography

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Morgan M, Shiekhattar R, Shilatifard A, Lauberth SM. It's a DoG-eat-DoG world-altered transcriptional mechanisms drive downstream-of-gene (DoG) transcript production. Mol Cell. 2022 Jun 2;82(11):1981-1991. doi: 10.1016/j.molcel.2022.04.008. Epub 2022 Apr 28. Review. PubMed PMID: 35487209; PubMed Central PMCID: PMC9208299.

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Arguello T, Peralta S, Antonicka H, Gaidosh G, Diaz F, Tu YT, Garcia S, Shiekhattar R, Barrientos A, Moraes CT. ATAD3A has a scaffolding role regulating mitochondria inner membrane structure and protein assembly. Cell Rep. 2021 Dec 21;37(12):110139. doi: 10.1016/j.celrep.2021.110139. PubMed PMID: 34936866; PubMed Central PMCID: PMC8785211.

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Pascual G, Domínguez D, Elosúa-Bayes M, Beckedorff F, Laudanna C, Bigas C, Douillet D, Greco C, Symeonidi A, Hernández I, Gil SR, Prats N, Bescós C, Shiekhattar R, Amit M, Heyn H, Shilatifard A, Benitah SA. Dietary palmitic acid promotes a prometastatic memory via Schwann cells. Nature. 2021 Nov;599(7885):485-490. doi: 10.1038/s41586-021-04075-0. Epub 2021 Nov 10. PubMed PMID: 34759321.

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Dasilva LF, Blumenthal E, Beckedorff F, Cingaram PR, Gomes Dos Santos H, Edupuganti RR, Zhang A, Dokaneheifard S, Aoi Y, Yue J, Kirstein N, Tayari MM, Shilatifard A, Shiekhattar R. Integrator enforces the fidelity of transcriptional termination at protein-coding genes. Sci Adv. 2021 Nov 5;7(45):eabe3393. doi: 10.1126/sciadv.abe3393. Epub 2021 Nov 3. PubMed PMID: 34730992; PubMed Central PMCID: PMC8565846.

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Ayupe AC, Beckedorff F, Levay K, Yon B, Salgueiro Y, Shiekhattar R, Park KK. Identification of long noncoding RNAs in injury-resilient and injury-susceptible mouse retinal ganglion cells. BMC Genomics. 2021 Oct 14;22(1):741. doi: 10.1186/s12864-021-08050-x. PubMed PMID: 34649511; PubMed Central PMCID: PMC8518251.

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Sun J, Gaidosh G, Xu Y, Mookhtiar A, Man N, Cingaram PR, Blumenthal E, Shiekhattar R, Goka ET, Nimer SD, Lippman ME. RAC1 plays an essential role in estrogen receptor alpha function in breast cancer cells. Oncogene. 2021 Oct;40(40):5950-5962. doi: 10.1038/s41388-021-01985-1. Epub 2021 Aug 9. PubMed PMID: 34373577; PubMed Central PMCID: PMC8497275.

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Shersher E, Lahiry M, Alvarez-Trotta A, Diluvio G, Robbins DJ, Shiekhattar R, Capobianco AJ. NACK and INTEGRATOR act coordinately to activate Notch-mediated transcription in tumorigenesis. Cell Commun Signal. 2021 Sep 22;19(1):96. doi: 10.1186/s12964-021-00776-1. PubMed PMID: 34551776; PubMed Central PMCID: PMC8456597.

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Rebelo AP, Cortese A, Abraham A, Eshed-Eisenbach Y, Shner G, Vainshtein A, Buglo E, Camarena V, Gaidosh G, Shiekhattar R, Abreu L, Courel S, Burns DK, Bai Y, Bacon C, Feely SME, Castro D, Peles E, Reilly MM, Shy ME, Zuchner S. Erratum to: A CADM3 variant causes Charcot-Marie-Tooth disease with marked upper limb involvement. Brain. 2021 Aug 17;144(7):e64. doi: 10.1093/brain/awab181. PubMed PMID: 34037698; PubMed Central PMCID: PMC8370422.

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Sun G, Shvab A, Leclerc GJ, Li B, Beckedorff F, Shiekhattar R, Barredo JC. Protein Kinase D-Dependent Downregulation of Immediate Early Genes through Class IIA Histone Deacetylases in Acute Lymphoblastic Leukemia. Mol Cancer Res. 2021 Aug;19(8):1296-1307. doi: 10.1158/1541-7786.MCR-20-0808. Epub 2021 May 12. PubMed PMID: 33980612.

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Kirstein N, Gomes Dos Santos H, Blumenthal E, Shiekhattar R. The Integrator complex at the crossroad of coding and noncoding RNA. Curr Opin Cell Biol. 2021 Jun;70:37-43. doi: 10.1016/j.ceb.2020.11.003. Epub 2020 Dec 16. Review. PubMed PMID: 33340967; PubMed Central PMCID: PMC8119304.

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Rebelo AP, Cortese A, Abraham A, Eshed-Eisenbach Y, Shner G, Vainshtein A, Buglo E, Camarena V, Gaidosh G, Shiekhattar R, Abreu L, Courel S, Burns DK, Bai Y, Bacon C, Feely SME, Castro D, Peles E, Reilly MM, Shy ME, Zuchner S. A CADM3 variant causes Charcot-Marie-Tooth disease with marked upper limb involvement. Brain. 2021 May 7;144(4):1197-1213. doi: 10.1093/brain/awab019. PubMed PMID: 33889941; PubMed Central PMCID: PMC8105037.

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Tayari MM, Santos HGD, Kwon D, Bradley TJ, Thomassen A, Chen C, Dinh Y, Perez A, Zelent A, Morey L, Cimmino L, Shiekhattar R, Swords RT, Watts JM. Clinical Responsiveness to All-trans Retinoic Acid Is Potentiated by LSD1 Inhibition and Associated with a Quiescent Transcriptome in Myeloid Malignancies. Clin Cancer Res. 2021 Apr 1;27(7):1893-1903. doi: 10.1158/1078-0432.CCR-20-4054. Epub 2021 Jan 25. PubMed PMID: 33495312; PubMed Central PMCID: PMC8026558.

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Beckedorff F, Blumenthal E, daSilva LF, Aoi Y, Cingaram PR, Yue J, Zhang A, Dokaneheifard S, Valencia MG, Gaidosh G, Shilatifard A, Shiekhattar R. The Human Integrator Complex Facilitates Transcriptional Elongation by Endonucleolytic Cleavage of Nascent Transcripts. Cell Rep. 2020 Jul 21;32(3):107917. doi: 10.1016/j.celrep.2020.107917. PubMed PMID: 32697989; PubMed Central PMCID: PMC7427568.

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Chan HL, Beckedorff F, Zhang Y, Garcia-Huidobro J, Jiang H, Colaprico A, Bilbao D, Figueroa ME, LaCava J, Shiekhattar R, Morey L. Polycomb complexes associate with enhancers and promote oncogenic transcriptional programs in cancer through multiple mechanisms. Nat Commun. 2018 Aug 23;9(1):3377. doi: 10.1038/s41467-018-05728-x. PubMed PMID: 30139998; PubMed Central PMCID: PMC6107513.

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Amaral PP, Leonardi T, Han N, Viré E, Gascoigne DK, Arias-Carrasco R, Büscher M, Pandolfini L, Zhang A, Pluchino S, Maracaja-Coutinho V, Nakaya HI, Hemberg M, Shiekhattar R, Enright AJ, Kouzarides T. Genomic positional conservation identifies topological anchor point RNAs linked to developmental loci. Genome Biol. 2018 Mar 15;19(1):32. doi: 10.1186/s13059-018-1405-5. PubMed PMID: 29540241; PubMed Central PMCID: PMC5853149.

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Chen FX, Xie P, Collings CK, Cao K, Aoi Y, Marshall SA, Rendleman EJ, Ugarenko M, Ozark PA, Zhang A, Shiekhattar R, Smith ER, Zhang MQ, Shilatifard A. PAF1 regulation of promoter-proximal pause release via enhancer activation. Science. 2017 Sep 22;357(6357):1294-1298. doi: 10.1126/science.aan3269. Epub 2017 Aug 31. PubMed PMID: 28860207; PubMed Central PMCID: PMC6055228.

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Yue J, Lai F, Beckedorff F, Zhang A, Pastori C, Shiekhattar R. Integrator orchestrates RAS/ERK1/2 signaling transcriptional programs. Genes Dev. 2017 Sep 1;31(17):1809-1820. doi: 10.1101/gad.301697.117. PubMed PMID: 28982763; PubMed Central PMCID: PMC5666678.

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Cheng G, Liu F, Asai T, Lai F, Man N, Xu H, Chen S, Greenblatt S, Hamard PJ, Ando K, Chen X, Wang L, Martinez C, Tadi M, Wang L, Xu M, Yang FC, Shiekhattar R, Nimer SD. Loss of p300 accelerates MDS-associated leukemogenesis. Leukemia. 2017 Jun;31(6):1382-1390. doi: 10.1038/leu.2016.347. Epub 2016 Nov 24. PubMed PMID: 27881875; PubMed Central PMCID: PMC5667352.

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Witt AE, Lee CW, Lee TI, Azzam DJ, Wang B, Caslini C, Petrocca F, Grosso J, Jones M, Cohick EB, Gropper AB, Wahlestedt C, Richardson AL, Shiekhattar R, Young RA, Ince TA. Identification of a cancer stem cell-specific function for the histone deacetylases, HDAC1 and HDAC7, in breast and ovarian cancer. Oncogene. 2017 Mar 23;36(12):1707-1720. doi: 10.1038/onc.2016.337. Epub 2016 Oct 3. PubMed PMID: 27694895; PubMed Central PMCID: PMC5364039.

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Bose DA, Donahue G, Reinberg D, Shiekhattar R, Bonasio R, Berger SL. RNA Binding to CBP Stimulates Histone Acetylation and Transcription. Cell. 2017 Jan 12;168(1-2):135-149.e22. doi: 10.1016/j.cell.2016.12.020. Epub 2017 Jan 12. PubMed PMID: 28086087; PubMed Central PMCID: PMC5325706.

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Li N, Li Y, Lv J, Zheng X, Wen H, Shen H, Zhu G, Chen TY, Dhar SS, Kan PY, Wang Z, Shiekhattar R, Shi X, Lan F, Chen K, Li W, Li H, Lee MG. ZMYND8 Reads the Dual Histone Mark H3K4me1-H3K14ac to Antagonize the Expression of Metastasis-Linked Genes. Mol Cell. 2016 Aug 4;63(3):470-84. doi: 10.1016/j.molcel.2016.06.035. Epub 2016 Jul 28. PubMed PMID: 27477906; PubMed Central PMCID: PMC4975651.

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Kim TK, Shiekhattar R. Diverse regulatory interactions of long noncoding RNAs. Curr Opin Genet Dev. 2016 Feb;36:73-82. doi: 10.1016/j.gde.2016.03.014. Epub 2016 May 3. Review. PubMed PMID: 27151434; PubMed Central PMCID: PMC4880524.

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Lai F, Blumenthal E, Shiekhattar R. Detection and Analysis of Long Noncoding RNAs. Methods Enzymol. 2016;573:421-44. doi: 10.1016/bs.mie.2016.03.010. Epub 2016 Mar 28. PubMed PMID: 27372765.

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Lai F, Gardini A, Zhang A, Shiekhattar R. Integrator mediates the biogenesis of enhancer RNAs. Nature. 2015 Sep 17;525(7569):399-403. doi: 10.1038/nature14906. Epub 2015 Aug 26. PubMed PMID: 26308897; PubMed Central PMCID: PMC4718573.

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Chen FX, Woodfin AR, Gardini A, Rickels RA, Marshall SA, Smith ER, Shiekhattar R, Shilatifard A. PAF1, a Molecular Regulator of Promoter-Proximal Pausing by RNA Polymerase II. Cell. 2015 Aug 27;162(5):1003-15. doi: 10.1016/j.cell.2015.07.042. Epub 2015 Aug 13. PubMed PMID: 26279188; PubMed Central PMCID: PMC4679144.

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Kim TK, Shiekhattar R. Architectural and Functional Commonalities between Enhancers and Promoters. Cell. 2015 Aug 27;162(5):948-59. doi: 10.1016/j.cell.2015.08.008. Review. PubMed PMID: 26317464; PubMed Central PMCID: PMC4556168.

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Gardini A, Shiekhattar R. The many faces of long noncoding RNAs. FEBS J. 2015 May;282(9):1647-57. doi: 10.1111/febs.13101. Epub 2014 Nov 7. Review. PubMed PMID: 25303371; PubMed Central PMCID: PMC4520312.

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Gardini A, Baillat D, Cesaroni M, Hu D, Marinis JM, Wagner EJ, Lazar MA, Shilatifard A, Shiekhattar R. Integrator regulates transcriptional initiation and pause release following activation. Mol Cell. 2014 Oct 2;56(1):128-139. doi: 10.1016/j.molcel.2014.08.004. Epub 2014 Sep 4. PubMed PMID: 25201415; PubMed Central PMCID: PMC4292851.

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Rocha-Viegas L, Villa R, Gutierrez A, Iriondo O, Shiekhattar R, Di Croce L. Role of UTX in retinoic acid receptor-mediated gene regulation in leukemia. Mol Cell Biol. 2014 Oct 1;34(19):3765-75. doi: 10.1128/MCB.00839-14. Epub 2014 Jul 28. PubMed PMID: 25071154; PubMed Central PMCID: PMC4187727.

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Bonasio R, Shiekhattar R. Regulation of transcription by long noncoding RNAs. Annu Rev Genet. 2014;48:433-55. doi: 10.1146/annurev-genet-120213-092323. Epub 2014 Sep 18. Review. PubMed PMID: 25251851; PubMed Central PMCID: PMC4285387.

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Dang W, Sutphin GL, Dorsey JA, Otte GL, Cao K, Perry RM, Wanat JJ, Saviolaki D, Murakami CJ, Tsuchiyama S, Robison B, Gregory BD, Vermeulen M, Shiekhattar R, Johnson FB, Kennedy BK, Kaeberlein M, Berger SL. Inactivation of yeast Isw2 chromatin remodeling enzyme mimics longevity effect of calorie restriction via induction of genotoxic stress response. Cell Metab. 2014 Jun 3;19(6):952-66. doi: 10.1016/j.cmet.2014.04.004. Epub 2014 May 8. PubMed PMID: 24814484; PubMed Central PMCID: PMC4106248.

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Gardini A, Baillat D, Cesaroni M, Shiekhattar R. Genome-wide analysis reveals a role for BRCA1 and PALB2 in transcriptional co-activation. EMBO J. 2014 Apr 16;33(8):890-905. doi: 10.1002/embj.201385567. Epub 2014 Mar 3. PubMed PMID: 24591564; PubMed Central PMCID: PMC4194113.

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Lai F, Shiekhattar R. Enhancer RNAs: the new molecules of transcription. Curr Opin Genet Dev. 2014 Apr;25:38-42. doi: 10.1016/j.gde.2013.11.017. Epub 2014 Jan 28. Review. PubMed PMID: 24480293; PubMed Central PMCID: PMC4484728.

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Lai F, Shiekhattar R. Where long noncoding RNAs meet DNA methylation. Cell Res. 2014 Mar;24(3):263-4. doi: 10.1038/cr.2014.13. Epub 2014 Jan 31. PubMed PMID: 24481530; PubMed Central PMCID: PMC3945889.

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Ørom UA, Shiekhattar R. Long noncoding RNAs usher in a new era in the biology of enhancers. Cell. 2013 Sep 12;154(6):1190-3. doi: 10.1016/j.cell.2013.08.028. Review. PubMed PMID: 24034243; PubMed Central PMCID: PMC4108076.

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Shiekhattar R. Opening the Chromatin by eRNAs. Mol Cell. 2013 Sep 12;51(5):557-8. doi: 10.1016/j.molcel.2013.08.033. PubMed PMID: 24034693; PubMed Central PMCID: PMC4492513.

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Lai F, Orom UA, Cesaroni M, Beringer M, Taatjes DJ, Blobel GA, Shiekhattar R. Activating RNAs associate with Mediator to enhance chromatin architecture and transcription. Nature. 2013 Feb 28;494(7438):497-501. doi: 10.1038/nature11884. Epub 2013 Feb 17. PubMed PMID: 23417068; PubMed Central PMCID: PMC4109059.

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Shiekhattar R. PINTing for p53. Genome Biol. 2013;14(9):132. doi: 10.1186/gb-2013-14-9-132. PubMed PMID: 24079657; PubMed Central PMCID: PMC4053842.

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Baillat D, Gardini A, Cesaroni M, Shiekhattar R. Requirement for SNAPC1 in transcriptional responsiveness to diverse extracellular signals. Mol Cell Biol. 2012 Nov;32(22):4642-50. doi: 10.1128/MCB.00906-12. Epub 2012 Sep 10. PubMed PMID: 22966203; PubMed Central PMCID: PMC3486178.

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Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, Tilgner H, Guernec G, Martin D, Merkel A, Knowles DG, Lagarde J, Veeravalli L, Ruan X, Ruan Y, Lassmann T, Carninci P, Brown JB, Lipovich L, Gonzalez JM, Thomas M, Davis CA, Shiekhattar R, Gingeras TR, Hubbard TJ, Notredame C, Harrow J, Guigó R. The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res. 2012 Sep;22(9):1775-89. doi: 10.1101/gr.132159.111. PubMed PMID: 22955988; PubMed Central PMCID: PMC3431493.

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Herz HM, Mohan M, Garrett AS, Miller C, Casto D, Zhang Y, Seidel C, Haug JS, Florens L, Washburn MP, Yamaguchi M, Shiekhattar R, Shilatifard A. Polycomb repressive complex 2-dependent and -independent functions of Jarid2 in transcriptional regulation in Drosophila. Mol Cell Biol. 2012 May;32(9):1683-93. doi: 10.1128/MCB.06503-11. Epub 2012 Feb 21. PubMed PMID: 22354997; PubMed Central PMCID: PMC3347239.

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Carré C, Shiekhattar R. Human GTPases associate with RNA polymerase II to mediate its nuclear import. Mol Cell Biol. 2011 Oct;31(19):3953-62. doi: 10.1128/MCB.05442-11. Epub 2011 Jul 18. PubMed PMID: 21768307; PubMed Central PMCID: PMC3187354.

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Orom UA, Shiekhattar R. Noncoding RNAs and enhancers: complications of a long-distance relationship. Trends Genet. 2011 Oct;27(10):433-9. doi: 10.1016/j.tig.2011.06.009. Epub 2011 Aug 9. Review. PubMed PMID: 21831473; PubMed Central PMCID: PMC4484734.

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Mejetta S, Morey L, Pascual G, Kuebler B, Mysliwiec MR, Lee Y, Shiekhattar R, Di Croce L, Benitah SA. Jarid2 regulates mouse epidermal stem cell activation and differentiation. EMBO J. 2011 Aug 2;30(17):3635-46. doi: 10.1038/emboj.2011.265. PubMed PMID: 21811233; PubMed Central PMCID: PMC3181486.

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Ørom UA, Derrien T, Guigo R, Shiekhattar R. Long noncoding RNAs as enhancers of gene expression. Cold Spring Harb Symp Quant Biol. 2010;75:325-31. doi: 10.1101/sqb.2010.75.058. Epub 2011 Apr 18. PubMed PMID: 21502407; PubMed Central PMCID: PMC3779064.

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Ørom UA, Shiekhattar R. Long non-coding RNAs and enhancers. Curr Opin Genet Dev. 2011 Apr;21(2):194-8. doi: 10.1016/j.gde.2011.01.020. Epub 2011 Feb 15. Review. PubMed PMID: 21330130; PubMed Central PMCID: PMC3779066.

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Fortschegger K, Shiekhattar R. Plant homeodomain fingers form a helping hand for transcription. Epigenetics. 2011 Jan;6(1):4-8. doi: 10.4161/epi.6.1.13297. Epub 2011 Jan 1. Review. PubMed PMID: 20818169; PubMed Central PMCID: PMC3044459.

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Ørom UA, Derrien T, Beringer M, Gumireddy K, Gardini A, Bussotti G, Lai F, Zytnicki M, Notredame C, Huang Q, Guigo R, Shiekhattar R. Long noncoding RNAs with enhancer-like function in human cells. Cell. 2010 Oct 1;143(1):46-58. doi: 10.1016/j.cell.2010.09.001. PubMed PMID: 20887892; PubMed Central PMCID: PMC4108080.

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Fortschegger K, de Graaf P, Outchkourov NS, van Schaik FM, Timmers HT, Shiekhattar R. PHF8 targets histone methylation and RNA polymerase II to activate transcription. Mol Cell Biol. 2010 Jul;30(13):3286-98. doi: 10.1128/MCB.01520-09. Epub 2010 Apr 26. PubMed PMID: 20421419; PubMed Central PMCID: PMC2897584.

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Baillat D, Shiekhattar R. Functional dissection of the human TNRC6 (GW182-related) family of proteins. Mol Cell Biol. 2009 Aug;29(15):4144-55. doi: 10.1128/MCB.00380-09. Epub 2009 May 26. PubMed PMID: 19470757; PubMed Central PMCID: PMC2715800.