Northwestern University Feinberg School of Medicine

Shilatifard Laboratory

Publications

2016

Regulation of the imprinted Dlk1-Dio3 locus by allele-specific enhancer activity. Luo Z, Lin C, Woodfin AR, Bartom ET, Gao X, Smith ER, Shilatifard A. Genes Dev. 2016 Jan 1;30(1):92-101. doi: 10.1101/gad.270413.115. PMID: 26728555

2015

Mitotic Transcriptional Activation: Clearance of Actively Engaged Pol II via Transcriptional Elongation Control in Mitosis. Liang K, Woodfin AR, Slaughter BD, Unruh JR, Box AC, Rickels RA, Gao X, Haug JS, Jaspersen SL,Shilatifard A. Mol Cell. 2015 Nov 5;60(3):435-45. doi: 10.1016/j.molcel.2015.09.021. PMID: 26527278

The histone lysine methyltransferase KMT2D sustains a gene expression program that represses B cell lymphoma development. Ortega-Molina A, Boss IW, Canela A, Pan H, Jiang Y, Zhao C, Jiang M, Hu D, Agirre X, Niesvizky I, Lee JE, Chen HT, Ennishi D, Scott DW, Mottok A, Hother C, Liu S, Cao XJ, Tam W, Shaknovich R, Garcia BA, Gascoyne RD, Ge K, Shilatifard A, Elemento O, Nussenzweig A, Melnick AM, Wendel HG. Nat Med. 2015 Oct;21(10):1199-208. doi: 10.1038/nm.3943. Epub 2015 Sep 14. PMID: 26366710

Gain-of-function p53 mutants co-opt chromatin pathways to drive cancer growth. Zhu J, Sammons MA, Donahue G, Dou Z, Vedadi M, Getlik M, Barsyte-Lovejoy D, Al-awar R, Katona BW, Shilatifard A, Huang J, Hua X, Arrowsmith CH, Berger SL. Nature. 2015 Sep 10;525(7568):206-11. doi: 10.1038/nature15251. Epub 2015 Sep 2. PMID: 26331536

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

Analysis of dynamic changes in retinoid induced transcription and epigenetic profiles of murine Hox clusters in ES cells.De Kumar B, Parrish ME, Slaughter BD, Unruh JR, Gogol M, Seidel C, Paulson A, Li H, Gaudenz K, Peak A, McDowell W, Fleharty B, Ahn Y, Lin C, Smith E, Shilatifard A, Krumlauf R. Genome Res. 2015 May 29. pii: gr.184978.114. [Epub ahead of print] PMID: 26025802

Zic2 is an enhancer-binding factor required for embryonic stem cell specification. Luo Z, Gao X, Lin C, Smith ER, Marshall SA, Swanson SK, Florens L, Washburn MP, Shilatifard A. Mol Cell. 2015 Feb 19;57(4):685-94. doi: 10.1016/j.molcel.2015.01.007. PMID: 25699711

Chromatin signatures of cancer. Morgan MA, Shilatifard A. Genes Dev. 2015 Feb 1;29(3):238-49. doi: 10.1101/gad.255182.114. Review. PMID: 25644600

A phosphorylation switch on RbBP5 regulates histone H3 Lys4 methylation. Zhang P, Chaturvedi CP, Tremblay V, Cramet M, Brunzelle JS, Skiniotis G, Brand M, Shilatifard A, Couture JF. Genes Dev. 2015 Jan 15;29(2):123-8. doi: 10.1101/gad.254870.114. PMID: 25593305

Stably paused genes revealed through inhibition of transcription initiation by the TFIIH inhibitor triptolide. Chen F, Gao X, Shilatifard A. Genes Dev. 2015 Jan 1;29(1):39-47. doi: 10.1101/gad.246173.114. PMID: 25561494

Characterization of human cyclin-dependent kinase 12 (CDK12) and CDK13 complexes in C-terminal domain phosphorylation, gene transcription, and RNA processing. Liang K, Gao X, Gilmore JM, Florens L, Washburn MP, Smith E, Shilatifard A. Mol Cell Biol. 2015 Mar;35(6):928-38. doi: 10.1128/MCB.01426-14. Epub 2015 Jan 5. PMID: 25561469

Molecular basis for DPY-30 association to COMPASS-like and NURF complexes. Tremblay V, Zhang P, Chaturvedi CP, Thornton J, Brunzelle JS, Skiniotis G, Shilatifard A, Brand M, Couture JF. Structure. 2014 Dec 2;22(12):1821-30. doi: 10.1016/j.str.2014.10.002. Epub 2014 Nov 20. PMID: 25456412

2014

Integrator Regulates Transcriptional Initiation and Pause Release following Activation. Gardini A, Baillat D, Cesaroni M, Hu D, Marinis JM, Wagner EJ, Lazar MA, Shilatifard A, Shiekhattar R. Mol Cell. 2014 Oct 2;56(1):128-39. doi: 10.1016/j.molcel.2014.08.004. Epub 2014 Sep 4. PMID: 25201415

Histone H3 lysine-to-methionine mutants as a paradigm to study chromatin signaling. Herz HM, Morgan M, Gao X, Jackson J, Rickels R, Swanson SK, Florens L, Washburn MP, Eissenberg JC, Shilatifard A. Science. 2014 Aug 29;345(6200):1065-70. doi: 10.1126/science.1255104. PMID: 25170156

Inhibit globally, act locally: CDK7 inhibitors in cancer therapy. Cao K, Shilatifard A. Cancer Cell. 2014 Aug 11;26(2):158-9. doi: 10.1016/j.ccr.2014.07.020. PMID: 25117707

A role for H3K4 monomethylation in gene repression and partitioning of chromatin readers. Cheng J, Blum R, Bowman C, Hu D, Shilatifard A, Shen S, Dynlacht BD. Mol Cell. 2014 Mar 20;53(6):979-92. doi: 10.1016/j.molcel.2014.02.032. PMID: 24656132

Enhancer biology and enhanceropathies. Smith E, Shilatifard A. Nat Struct Mol Biol. 2014 Mar;21(3):210-9. Review. PMID: 24599251 [PubMed - indexed for MEDLINE]

Context dependency of Set1/COMPASS-mediated histone H3 Lys4 trimethylation. Thornton JL, Westfield GH, Takahashi YH, Cook M, Gao X, Woodfin AR, Lee JS, Morgan MA, Jackson J, Smith ER, Couture JF, Skiniotis G, Shilatifard A. Genes Dev. 2014 Jan 8. [Epub ahead of print]

2013

SET for life: biochemical activities and biological functions of SET domain-containing proteins. Herz HM, Garruss A, Shilatifard A. Trends Biochem Sci. 2013 Dec;38(12):621-39. doi: 10.1016/j.tibs.2013.09.004. Epub 2013 Oct 20. PMID: 24148750 [PubMed - in process]

The MLL3/MLL4 Branches of the COMPASS Family Function as Major Histone H3K4 Monomethylases at Enhancers. Hu D, Gao X, Morgan MA, Herz HM, Smith ER, Shilatifard A. Mol Cell Biol. 2013

The Mll2 branch of the COMPASS family regulates bivalent promoters in mouse embryonic stem cells.  Hu D, Garruss AS, Gao X, Morgan MA, Cook M, Smith ER, Shilatifard A.  Nat Struct Mol Biol. 2013 Aug 11.

The Little Elongation Complex Functions at Initiation and Elongation Phases of snRNA Gene Transcription. Hu D, Smith ER, Garruss AS, Mohaghegh N, Varberg JM, Lin C, Jackson J, Gao X, Saraf A, Florens L, Washburn MP, Eissenberg JC, Shilatifard A. Mol Cell. 2013 Aug 22;51(4):493-505. doi: 10.1016/j.molcel.2013.07.003. Epub 2013 Aug 8. PMID: 23932780

A Histone Modifier's Ill-Gotten Copy Gains.  Rickels R, Shilatifard A.  Cell. 2013 Aug 1;154(3):477-9. doi: 10.1016/j.cell.2013.07.010.  PMID: 23911314  [PubMed - in process]

Transcriptional elongation checkpoint control in development and disease.  Smith E, Shilatifard A.  Genes Dev. 2013 May 15;27(10):1079-88. Review.

(Poly)combing the pediatric cancer genome for answers.  Morgan MA, Shilatifard A.  Science. 2013 May 17;340(6134):823-4. doi: 10.1126/science.1239223.  PMID: 23687038

Drosophila SETs its Sights on Cancer: Trr/MLL3/4 COMPASS-like complexes in Development and Disease.  Morgan M.A., Shilatifard A.  Mol Cell Biol. 2013 Mar 4. [Epub ahead of print]  PMID: 23459940

The RNA Pol II Elongation Factor Ell3 Marks Enhancers in ES Cells and Primes Future Gene Activation.  Lin, C., Garruss, A., Luo, Z., Guo, F.,  Shilatifard, A.  Cell (2013)

2012

Enhancer-associated H3K4 mono-methylation by Drosophila Trithorax-related/COMPASS, the Drosophila homolog of Mll3/Mll4 complexes.  Herz, H-M., Mohan, M., Garruss, A.S., Takahashi, Y-H., Mickey, K., Voets, O.,Verrijzer, C.P.,  and Shilatifard, A. Genes Dev.(2012) In press.

The super elongation complex (SEC) family in transcriptional control. Luo Z, Lin C, Shilatifard A. Nat Rev Mol Cell Biol. 2012 Aug 16;13(9):543-7. doi: 10.1038/nrm3417. Epub 2012 Aug 16.

The COMPASS Family of Histone H3K4 Methylases: Mechanisms of Regulation in Development and Disease Pathogenesis. Shilatifard A. Annu Rev Biochem. 2012 Jul 7;81:65-95.

Codependency of H2B monoubiquitination and nucleosome reassembly on Chd1. Lee JS, Garrett AS, Yen K, Takahashi YH, Hu D, Jackson J, Seidel C, Pugh BF, Shilatifard A.  Genes Dev. 2012 May 1;26(9):914-9.

The Super Elongation Complex Family of RNA Polymerase II Elongation Factors: Gene Target Specificity and Transcriptional Output. Luo Z, Lin C, Guest E, Garrett AS, Mohaghegh N, Swanson S, Marshall S, Florens L, Washburn MP, Shilatifard A. Mol Cell Biol. 2012 Jul;32(13):2608-17. Epub 2012 Apr 30.

SnapShot: Histone lysine methylase complexes. Mohan M, Herz HM, Shilatifard A. Cell. 2012 Apr 13;149(2):498-498.e1.

Polycomb repressive complex 2-dependent and -independent functions of Jarid2 in transcriptional regulation in Drosophila. 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. Mol Cell Biol. 2012 May;32(9):1683-93. Epub 2012 Feb 21.

2011

The little elongation complex regulates small nuclear RNA transcription. Smith ER, Lin C, Garrett AS, Thornton J, Mohaghegh N, Hu D, Jackson J, Saraf A, Swanson SK, Seidel C, Florens L, Washburn MP, Eissenberg JC, Shilatifard A. Mol Cell. 2011 Dec 23;44(6):954-65.

Structural analysis of the core COMPASS family of histone H3K4 methylases from yeast to human. Takahashi YH, Westfield GH, Oleskie AN, Trievel RC, Shilatifard A, Skiniotis G. Proc Natl Acad Sci U S A. 2011 Dec 20;108(51):20526-31. Epub 2011 Dec 7. PMID: 22158900

Splitting the task: Ubp8 and Ubp10 deubiquitinate different cellular pools of H2BK123. Schulze JM, Hentrich T, Nakanishi S, Gupta A, Emberly E, Shilatifard A, Kobor MS.  Genes Dev. 2011 Nov 1;25(21):2242-7.

The COMPASS Family of H3K4 Methylases in Drosophila. Mohan M, Herz HM, Smith ER, Zhang Y, Jackson J, Washburn MP, Florens L, Eissenberg JC, Shilatifard A.  Mol Cell Biol. 2011 Nov;31(21):4310-8. Epub 2011 Aug 29.

Dynamic transcriptional events in embryonic stem cells mediated by the super elongation complex (SEC)  Chengqi Lin1, Alexander S. Garrett1, Bony De Kumar1, Edwin R. Smith1, Madelaine Gogol1, Christopher Seidel1, Robb Krumlauf1,2 and Ali Shilatifard1,3. Genes Dev. 2011 July; 25:1486-1498.

Dot1 and histone H3K79 methylation in natural telomeric and HM silencing. Takahashi YH, Schulze JM, Jackson J, Hentrich T, Seidel C, Jaspersen SL, Kobor MS, Shilatifard A. Mol Cell. 2011 Apr 8;42(1):118-26.

The super elongation complex (SEC) and MLL in development and disease. Smith E, Lin C, Shilatifard A. Genes Dev. 2011 Apr 1;25(7):661-72. Review.

A Conserved Patch near the C Terminus of Histone H4 Is Required for Genome Stability in Budding Yeast. Yu Y, Srinivasan M, Nakanishi S, Leatherwood J, Shilatifard A, Sternglanz R.  Mol Cell Biol. 2011 Jun;31(11):2311-25. Epub 2011 Mar 28.

Chromosomes and gene expression mechanisms: peeling away the many layers of transcriptional control. Shilatifard A, Verrijzer P.  Curr Opin Genet Dev. 2011 Mar 4. [Epub ahead of print]

2010

The chromatin signaling pathway: diverse mechanisms of recruitment of histone-modifying enzymes and varied biological outcomes. Smith E, Shilatifard A.  Mol Cell. 2010 Dec 10;40(5):689-701. Review

Licensed to elongate: a molecular mechanism for MLL-based leukaemogenesis. Mohan M, Lin C, Guest E, Shilatifard A.  Nat Rev Cancer. 2010 October 10(10):721-8. Epub 2010 Sep 16.

The Language of Histone Crosstalk. Lee JS, Smith E, Shilatifard A. Cell, 2010 September 3; 142(5): 682-685.

The JARID2-PRC2 duality.  Herz HM, Shilatifard A.  Genes Dev. 2010 May;24(9):857-61.

The H3K27me3-demethylase dUTX is a suppressor of Notch- and Rb-dependent tumors in Drosophila.  Herz HM, Madden LD, Chen Z, Bolduc C, Buff E, Gupta R, Davuluri R, Shilatifard A, Hariharan IK, Bergmann A.  Mol Cell Biol. 2010 Mar 8. [Epub ahead of print]

Linking H3K79 trimethylation to Wnt signaling through a novel Dot1-containing complex (DotCom).  Mohan M, Herz HM, Takahashi YH, Lin C, Lai KC, Zhang Y, Washburn MP, Florens L, Shilatifard A.  Genes Dev. 2010 Mar 15;24(6):574-89. Epub 2010 Mar 4.

AFF4, a component of the ELL/P-TEFb elongation complex and a shared subunit of MLL chimeras, can link transcription elongation to leukemia. Lin C, Smith ER, Takahashi H, Lai KC, Martin-Brown S, Florens L, Washburn MP, Conaway JW, Conaway RC, Shilatifard A.  Mol Cell. 2010 Feb 12;37(3):429-37.

2009

Structural basis for H3K4 trimethylation by yeast Set1/COMPASS. Takahashi YH, Shilatifard A.  Adv Enzyme Regul. 2009 Dec 18.

The Curious Case of Bivalent Marks. Herz HM, Nakanishi S, Shilatifard A. Developmental Cell 2009. [published ahead of print August 14, 2009].

Molecular Implementation and Physiological Roles for Histone H3 Lysine 4 (H3K4) Methylation. Shilatifard A. Curr Opin Cell Biol. Author manuscript; available in PMC 2009 June 1.

RAD6-Mediated transcription-coupled H2B ubiquitylation directly stimulates H3K4 methylation in human cells.  Kim J, Guermah M, McGinty RK, Lee JS, Tang Z, Milne TA, Shilatifard A, Muir TW, Roeder RG.  Cell. 2009 May 1;137(3):459-71.

Regulation of H3K4 trimethylation via Cps40 (Spp1) of COMPASS is monoubiquitination-independent: Implication for a Phe/Tyr switch by the catalytic domain of Set1. Takahashi YH, Lee JS, Swanson SK, Saraf A, Florens L, Washburn MP, Trievel RC, Shilatifard A.  Mol Cell Biol. 2009 Apr 27. [Epub ahead of print]

An operational definition of epigenetics.  Berger SL, Kouzarides T, Shiekhattar R, Shilatifard A. Genes Dev. 2009 Apr 1;23(7):781-3.

Histone H3 Lysine 36 Dimethylation (H3K36me2) Is Sufficient to Recruit the Rpd3s Histone Deacetylase Complex and to Repress Spurious Transcription. Li B, Jackson J, Simon MD, Fleharty B, Gogol M, Seidel C, Workman JL, Shilatifard A. J Biol Chem. 2009 Mar 20;284(12):7970-6. Epub 2009 Jan 20.

Developmental biology. Histone cross-talk in stem cells.  Smith E, Shilatifard A. Science. 2009 Jan 9;323(5911):221-2.

2008

Molecular regulation of H3K4 trimethylation by Wdr82, a component of the human Set1/COMPASS.  Wu M, Wang PF, Lee JS, Martin-Brown S, Florens L, Washburn M, Shilatifard A. Mol Cell Biol. 2008 Oct 6.

A comprehensive library of histone mutants identifies nucleosomal residues required for H3K4 methylation. Nakanishi S, Sanderson BW, Delventhal KM, Bradford WD, Staehling-Hampton K, Shilatifard A.  Nat Struct Mol Biol. 2008 Aug;15(8):881-8. Epub 2008 Jul 11.

Regulation of the transcriptional activity of poised RNA polymerase II by the elongation factor ELL.  Smith ER, Winter B, Eissenberg JC, Shilatifard A. Proc Natl Acad SciU S A. 2008 Jun 24;105(25):8575-9. Epub 2008 Jun 17.

Molecular implementation and physiological roles for histone H3 lysine 4 (H3K4) methylation. Shilatifard, A. Curr Opin Cell Biol. 2008 May 26.

Parafibromin, a component of the human PAF complex, regulates growth factors and is required for embryonic development and survival in adult mice.  Wang P, Bowl MR, Bender S, Peng J, Farber L, Chen J, Ali A, Zhang Z, Alberts AS, Thakker RV, Shilatifard A, Williams BO, Teh BT. Mol Cell Biol. 2008 May;28(9):2930-40. Epub 2008 Jan 22.

2007

Histone crosstalk between H2B monoubiquitination and H3 methylation mediated by COMPASS. Lee JS, Shukla A, Schneider J, Swanson SK, Washburn MP, Florens L, Bhaumik SR, Shilatifard A.  Cell. 2007 Dec 14;131(6):1084-96.

Drosophila UTX is a histone H3 Lys27 demethylase that colocalizes with the elongating form of RNA polymerase II. Smith ER, Lee MG, Winter B, Droz NM, Eissenberg JC, Shiekhattar R, Shilatifard A.  Mol Cell Biol. 2008 Feb;28(3):1041-6. Epub 2007 Nov 26.

New nomenclature for chromatin-modifying enzymes. Allis CD, Berger SL, Cote J, Dent S, Jenuwien T, Kouzarides T, Pillus L, Reinberg D, Shi Y, Shiekhattar R, Shilatifard A, Workman J, Zhang Y.  Cell. 2007 Nov 16;131(4):633-6.

Covalent modifications of histones during development and disease pathogenesis. Bhaumik SR, Smith E, Shilatifard A.  Nat Struct Mol Biol. 2007 Nov;14(11):1008-16. Epub 2007 Nov 5. Review.

Histone H3 K4 demethylation during activation and attenuation of GAL1 transcription in Saccharomyces cerevisiae. Ingvarsdottir K, Edwards C, Lee MG, Lee JS, Schultz DC, Shilatifard A, Shiekhattar R, Berger SL.  Mol Cell Biol. 2007 Nov;27(22):7856-64. Epub 2007 Sep 17.

The A, B, Gs of silencing.  Smith E, Shilatifard A.  Genes Dev. 2007 May 15;21(10):1141-4. Review.

The trithorax-group gene in Drosophila little imaginal discs encodes a trimethylated histone H3 Lys4 demethylase.  Eissenberg JC, Lee MG, Schneider J, Ilvarsonn A, Shiekhattar R, Shilatifard A.  Nat Struct Mol Biol. 2007 Apr;14(4):344-6. Epub 2007 Mar 11.

A site to remember: H3K36 methylation a mark for histone deacetylation. Lee JS, Shilatifard A.  Mutat Res. 2007 May 1;618(1-2):130-4. Epub 2007 Jan 21. Review.

Physical and functional association of a trimethyl H3K4 demethylase and Ring6a/MBLR, a polycomb-like protein. Lee MG, Norman J, Shilatifard A, Shiekhattar R.  Cell. 2007 Mar 9;128(5):877-87. Epub 2007 Feb 22.

2006

Histone demethylation by hydroxylation: chemistry in action. Schneider J, Shilatifard A.  ACS Chem Biol. 2006 Mar 17;1(2):75-81. Review.

Ctk complex-mediated regulation of histone methylation by COMPASS. Wood A, Shukla A, Schneider J, Lee JS, Stanton JD, Dzuiba T, Swanson SK, Florens L, Washburn MP, Wyrick J, Bhaumik SR, Shilatifard A.  Mol Cell Biol. 2007 Jan;27(2):709-20. Epub 2006 Nov 6.

Rtt109 is required for proper H3K56 acetylation: a chromatin mark associated with the elongating RNA polymerase II.  Schneider J, Bajwa P, Johnson FC, Bhaumik SR, Shilatifard A.  J Biol Chem. 2006 Dec 8;281(49):37270-4. Epub 2006 Oct 17.

Cdk9 is an essential kinase in Drosophila that is required for heat shock gene expression, histone methylation and elongation factor recruitment. Eissenberg JC, Shilatifard A, Dorokhov N, Michener DE.  Mol Genet Genomics. 2007 Feb;277(2):101-14. Epub 2006 Sep 26.

Packing for the germy: the role of histone H4 Ser1 phosphorylation in chromatin compaction and germ cell development. Wendt KD, Shilatifard A. Genes Dev. 2006 Sep 15;20(18):2487-91. Review.

Molecular regulation of H3K4 trimethylation by ASH2L, a shared subunit of MLL complexes. Steward MM, Lee JS, O'Donovan A, Wyatt M, Bernstein BE, Shilatifard A.  Nat Struct Mol Biol. 2006 Sep;13(9):852-4. Epub 2006 Aug 6.

Drosophila Rtf1 functions in histone methylation, gene expression, and Notch signaling. Tenney K, Gerber M, Ilvarsonn A, Schneider J, Gause M, Dorsett D, Eissenberg JC, Shilatifard A.  Proc Natl Acad Sci U. S. A. 2006 Aug 8;103(32):11970-4. Epub 2006 Aug 1.

Chromatin modifications by methylation and ubiquitination: implications in the regulation of gene expression. Shilatifard A.  Annu Rev Biochem. 2006;75:243-69. Review.

Bur1/Bur2 and the Ctk complex in yeast: the split personality of mammalian P-TEFb.  Wood A, Shilatifard A.  Cell Cycle. 2006 May;5(10):1066-8. Epub 2006 May 15. Review.

Histone H2B monoubiquitination functions cooperatively with FACT to regulate elongation by RNA polymerase II.  Pavri R, Zhu B, Li G, Trojer P, Mandal S, Shilatifard A, Reinberg D.  Cell. 2006 May 19;125(4):703-17.

Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, Peregrín-Alvarez JM, Shales M, Zhang X, Davey M, Robinson MD, Paccanaro A, Bray JE, Sheung A, Beattie B, Richards DP, Canadien V, Lalev A, Mena F, Wong P, Starostine A, Canete MM, Vlasblom J, Wu S, Orsi C, Collins SR, Chandran S, Haw R, Rilstone JJ, Gandi K, Thompson NJ, Musso G, St Onge P, Ghanny S, Lam MH, Butland G, Altaf-Ul AM, Kanaya S, Shilatifard A, O'Shea E, Weissman JS, Ingles CJ, Hughes TR, Parkinson J, Gerstein M, Wodak SJ, Emili A, Greenblatt JF.  Nature. 2006 Mar 30;440(7084):637-43. Epub 2006 Mar 22.

Transcriptional blackjack with p21.  Wood A, Shilatifard A.  Genes Dev. 2006 Mar 15;20(6):643-7.

Leaving a mark: the many footprints of the elongating RNA polymerase II.  Eissenberg JC, Shilatifard A.  Curr Opin Genet Dev. 2006 Apr;16(2):184-90. Epub 2006 Feb 28. Review

2005

The Bur1/Bur2 complex is required for histone H2B monoubiquitination by Rad6/Bre1 and histone methylation by COMPASS.  Wood A, Schneider J, Dover J, Johnston M, Shilatifard A.  Mol Cell. 2005 Nov 23;20(4):589-99.

Integrator, a multiprotein mediator of small nuclear RNA processing, associates with the C-terminal repeat of RNA polymerase II.  Baillat D, Hakimi MA, Näär AM, Shilatifard A, Cooch N, Shiekhattar R. Cell. 2005 Oct 21;123(2):265-76.

Recruitment of MLL by HMG-domain protein iBRAF promotes neural differentiation.  Wynder C, Hakimi MA, Epstein JA, Shilatifard A, Shiekhattar R. Nat Cell Biol. 2005 Nov;7(11):1113-7.

Guided by COMPASS on a journey through chromosome segregation. Wood A, Shilatifard A. Nat Struct Mol Biol. 2005 Oct;12(10):839-40.

Molecular regulation of histone H3 trimethylation by COMPASS and the regulation of gene expression. Schneider J, Wood A, Lee JS, Schuster R, Dueker J, Maguire C, Swanson SK, Florens L, Washburn MP, Shilatifard A. Mol Cell. 2005 Sep 16;19(6):849-56.

Mutational analysis of an RNA polymerase II elongation factor in Drosophila melanogaster. Gerber MA, Shilatifard A, Eissenberg JC. Mol Cell Biol. 2005 Sep;25(17):7803-11.

Cross-talking histones: implications for the regulation of gene expression and DNA repair. Wood A, Schneider J, Shilatifard A. Biochem Cell Biol. 2005 Aug;83(4):460-7. Review.

ELL-associated factors 1 and 2 are positive regulators of RNA polymerase II elongation factor ELL. Kong SE, Banks CA, Shilatifard A, Conaway JW, Conaway RC.  Proc Natl Acad Sci U S A. 2005 Jul 19;102(29):10094-8. Epub 2005 Jul 8.

Multiple mixed lineage leukemia (MLL) fusion proteins suppress p53-mediated response to DNA damage.Wiederschain D, Kawai H, Shilatifard A, Yuan ZM. J Biol Chem. 2005 Jul 1;280(26):24315-21. Epub 2005 Apr 25.

A COMPASS in the voyage of defining the role of trithorax/MLL-containing complexes: linking leukemogensis to covalent modifications of chromatin. Tenney K, Shilatifard A. J Cell Biochem. 2005 Jun 1;95(3):429-36. Review.

Maintenance of low histone ubiquitylation by Ubp10 correlates with telomere-proximal Sir2 association and gene silencing. Emre NC, Ingvarsdottir K, Wyce A, Wood A, Krogan NJ, Henry KW, Li K, Marmorstein R, Greenblatt JF, Shilatifard A, Berger SL. Mol Cell. 2005 Feb 18;17(4):585-94.

2004

Regulation of heat shock gene expression by RNA polymerase II elongation factor, Elongin A. Gerber M, Tenney K, Conaway JW, Conaway RC, Eissenberg JC, Shilatifard A. J Biol Chem. 2005 Feb 11;280(6):4017-20. Epub 2004 Dec 16.

In vivo requirement of the RNA polymerase II elongation factor elongin A for proper gene expression and development. Gerber M, Eissenberg JC, Kong S, Tenney K, Conaway JW, Conaway RC, Shilatifard A. Mol Cell Biol. 2004 Nov;24(22):9911-9.

Transcriptional elongation control by RNA polymerase II: a new frontier. Shilatifard A. Biochim Biophys Acta. 2004 Mar 15;1677(1-3):79-86. Review.

Global proteomic analysis of S. cerevisiae (GPS) to identify proteins required for histone modifications. Schneider J, Dover J, Johnston M, Shilatifard A. Methods Enzymol. 2004;377:227-34.

Posttranslational modifications of histones by methylation. Wood A, Shilatifard A. Adv Protein Chem. 2004;67:201-22. Review.

2003

Preparation and assay of RNA polymerase II elongation factors elongin and ELL. Kong SE, Shilatifard A, Conaway RC, Conaway JW. Methods Enzymol. 2003;371:276-83.

Transcriptional activation via sequential histone H2B ubiquitylation and deubiquitylation, mediated by SAGA-associated Ubp8.  Henry KW, Wyce A, Lo WS, Duggan LJ, Emre NC, Kao CF, Pillus L, Shilatifard A, Osley MA, Berger SL. Genes Dev. 2003 Nov 1;17(21):2648-63. Epub 2003 Oct 16.

The Paf1 complex is essential for histone monoubiquitination by the Rad6-Bre1 complex, which signals for histone methylation by COMPASS and Dot1p.  Wood A, Schneider J, Dover J, Johnston M, Shilatifard A. J Biol Chem. 2003 Sep 12;278(37):34739-42. Epub 2003 Jul 21.

Molecular basis of p53 functional inactivation by the leukemic protein MLL-ELL.   Wiederschain D, Kawai H, Gu J, Shilatifard A, Yuan ZM. Mol Cell Biol. 2003 Jun;23(12):4230-46.

Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II. Krogan NJ, Kim M, Tong A, Golshani A, Cagney G, Canadien V, Richards DP, Beattie BK, Emili A, Boone C, Shilatifard A, Buratowski S, Greenblatt J. Mol Cell Biol. 2003 Jun;23(12):4207-18.

Transcriptional elongation by RNA polymerase II and histone methylation. Gerber M, Shilatifard A. J Biol Chem. 2003 Jul 18;278(29):26303-6. Epub 2003 May 22. Review.

The RNA polymerase II elongation complex. Shilatifard A, Conaway RC, Conaway JW. Annu Rev Biochem. 2003;72:693-715. Epub 2003 Mar 27. Review.

The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation. Krogan NJ, Dover J, Wood A, Schneider J, Heidt J, Boateng MA, Dean K, Ryan OW, Golshani A, Johnston M, Greenblatt JF, Shilatifard A. Mol Cell. 2003 Mar;11(3):721-9.

Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter. Wood A, Krogan NJ, Dover J, Schneider J, Heidt J, Boateng MA, Dean K, Golshani A, Zhang Y, Greenblatt JF, Johnston M, Shilatifard A. Mol Cell. 2003 Jan;11(1):267-74.

2002

RNA polymerase II elongation factors of Saccharomyces cerevisiae: a targeted proteomics approach. Krogan NJ, Kim M, Ahn SH, Zhong G, Kobor MS, Cagney G, Emili A, Shilatifard A, Buratowski S, Greenblatt JF. Mol Cell Biol. 2002 Oct;22(20):6979-92.

dELL is an essential RNA polymerase II elongation factor with a general role in development. Eissenberg JC, Ma J, Gerber MA, Christensen A, Kennison JA, Shilatifard A. Proc Natl Acad Sci U S A. 2002 Jul 23;99(15):9894-9. Epub 2002 Jul 2.

Methylation of histone H3 by COMPASS requires ubiquitination of histone H2B by Rad6. Dover J, Schneider J, Tawiah-Boateng MA, Wood A, Dean K, Johnston M, Shilatifard A. J Biol Chem. 2002 Aug 9;277(32):28368-71. Epub 2002 Jun 17. .

COMPASS, a histone H3 (Lysine 4) methyltransferase required for telomeric silencing of gene expression. Krogan NJ, Dover J, Khorrami S, Greenblatt JF, Schneider J, Johnston M, Shilatifard A. J Biol Chem. 2002 Mar 29;277(13):10753-5. Epub 2002 Jan 22.

2001

Drosophila ELL is associated with actively elongating RNA polymerase II on transcriptionally active sites in vivo. Gerber M, Ma J, Dean K, Eissenberg JC, Shilatifard A. EMBO J. 2001 Nov 1;20(21):6104-14.

COMPASS: a complex of proteins associated with a trithorax-related SET domain protein. Miller T, Krogan NJ, Dover J, Erdjument-Bromage H, Tempst P, Johnston M, Greenblatt JF, Shilatifard A. Proc Natl Acad Sci U S A. 2001 Nov 6;98(23):12902-7. Epub 2001 Oct 30. Erratum in: Proc Natl Acad Sci U S A 2001 Dec 18;98(26):15393-4.

Muf1, a novel Elongin BC-interacting leucine-rich repeat protein that can assemble with Cul5 and Rbx1 to reconstitute a ubiquitin ligase. Kamura T, Burian D, Yan Q, Schmidt SL, Lane WS, Querido E, Branton PE, Shilatifard A, Conaway RC, Conaway JW. J Biol Chem. 2001 Aug 10;276(32):29748-53. Epub 2001 May 30.

Cloning and characterization of ELL-associated proteins EAP45 and EAP20. a role for yeast EAP-like proteins in regulation of gene expression by glucose. Kamura T, Burian D, Khalili H, Schmidt SL, Sato S, Liu WJ, Conrad MN, Conaway RC, Conaway JW, Shilatifard A. J Biol Chem. 2001 May 11;276(19):16528-33. Epub 2001 Feb 5.

Transcription factors TFIIF, ELL, and Elongin negatively regulate SII-induced nascent transcript cleavage by non-arrested RNA polymerase II elongation intermediates. Elmendorf BJ, Shilatifard A, Yan Q, Conaway JW, Conaway RC. J Biol Chem. 2001 Jun 22;276(25):23109-14. Epub 2001 Mar 19.

Functional analysis of the leukemia protein ELL: evidence for a role in the regulation of cell growth and survival. Johnstone RW, Gerber M, Landewe T, Tollefson A, Wold WS, Shilatifard A. Mol Cell Biol. 2001 Mar;21(5):1672-81.

2000

A carboxy-terminal domain of ELL is required and sufficient for immortalization of myeloid progenitors by MLL-ELL. DiMartino JF, Miller T, Ayton PM, Landewe T, Hess JL, Cleary ML, Shilatifard A. Blood. 2000 Dec 1;96(12):3887-93.

Control of elongation by RNA polymerase II. Conaway JW, Shilatifard A, Dvir A, Conaway RC Trends Biochem Sci. 2000 Aug;25(8):375-80. Review.

Identification, cloning, expression, and biochemical characterization of the testis-specific RNA polymerase II elongation factor ELL3. Miller T, Williams K, Johnstone RW, Shilatifard A. J Biol Chem. 2000 Oct 13;275(41):32052-6.

Human PC4 is a substrate-specific inhibitor of RNA polymerase II phosphorylation. Schang LM, Hwang GJ, Dynlacht BD, Speicher DW, Bantly A, Schaffer PA, Shilatifard A, Ge H, Shiekhattar R. J Biol Chem. 2000 Mar 3;275(9):6071-4.

The amino terminus of the mixed lineage leukemia protein (MLL) promotes cell cycle arrest and monocytic differentiation. Caslini C, Shilatifard A, Yang L, Hess JL. Proc Natl Acad Sci U S A. 2000 Mar 14;97(6):2797-802.

1999

Cloning and characterization of the EAP30 subunit of the ELL complex that confers derepression of transcription by RNA polymerase II. Schmidt AE, Miller T, Schmidt SL, Shiekhattar R, Shilatifard A. J Biol Chem. 1999 Jul 30;274(31):21981-5.

The elongin B ubiquitin homology domain. Identification of Elongin B sequences important for interaction with Elongin C.  Brower CS, Shilatifard A, Mather T, Kamura T, Takagi Y, Haque D, Treharne A, Foundling SI, Conaway JW, Conaway RC. J Biol Chem. 1999 May 7;274(19):13629-36.

Inhibition of transcription by the trimeric cyclin-dependent kinase 7 complex. Bochar DA, Pan ZQ, Knights R, Fisher RP, Shilatifard A, Shiekhattar R. J Biol Chem. 1999 May 7;274(19):13162-6.

1998

Factors regulating the transcriptional elongation activity of RNA polymerase II. Shilatifard A. FASEB J. 1998 Nov;12(14):1437-46. Review.

Identification and purification of the Holo-ELL complex. Evidence for the presence of ELL-associated proteins that suppress the transcriptional inhibitory activity of ELL. Shilatifard A. J Biol Chem. 1998 May 1;273(18):11212-7.

The RNA polymerase II general elongation complex. Shilatifard A. Biol Chem. 1998 Jan;379(1):27-31. Review.

1997

Structure and function of RNA polymerase II elongation factor ELL. Identification of two overlapping ELL functional domains that govern its interaction with polymerase and the ternary elongation complex. Shilatifard A, Haque D, Conaway RC, Conaway JW. J Biol Chem. 1997 Aug 29;272(35):22355-63.

ELL2, a new member of an ELL family of RNA polymerase II elongation factors. Shilatifard A, Duan DR, Haque D, Florence C, Schubach WH, Conaway JW, Conaway RC. Proc Natl Acad Sci U S A. 1997 Apr 15;94(8):3639-43.

Mechanism and regulation of transcriptional elongation and termination by RNA polymerase II. Shilatifard A, Conaway JW, Conaway RC. Curr Opin Genet Dev. 1997 Apr;7(2):199-204.

Expression of human H-type alpha1,2-fucosyltransferase encoding for blood group H(O) antigen in Chinese hamster ovary cells. Evidence for preferential fucosylation and truncation of polylactosamine sequences. Prieto PA, Larsen RD, Cho M, Rivera HN, Shilatifard A, Lowe JB, Cummings RD, Smith DF. J Biol Chem. 1997 Jan 24;272(4):2089-97.

1996

Transcription syndromes and the role of RNA polymerase II general transcription factors in human disease. Aso T, Shilatifard A, Conaway JW, Conaway RC. J Clin Invest. 1996 Apr 1;97(7):1561-9. Review.

An RNA polymerase II elongation factor encoded by the human ELL gene. Shilatifard A, Lane WS, Jackson KW, Conaway RC, Conaway JW. Science. 1996 Mar 29;271(5257):1873-6.

1995

Sulphate release from keratan sulphate and heparan sulphate by bovine N-acetylglucosamine-6-sulphate sulphatase. Shilatifard A, Cummings RD. Glycobiology. 1995 May;5(3):291-7.

1994

Purification and characterization of N-acetylglucosamine-6-sulfate sulfatase from bovine kidney: evidence for the presence of a novel endosulfatase activity. Shilatifard A, Cummings RD. Biochemistry. 1994 Apr 12;33(14):4273-82.

1993

Complex-type N-linked oligosaccharides of gp120 from human immunodeficiency virus type 1 contain sulfated N-acetylglucosamine. Shilatifard A, Merkle RK, Helland DE, Welles JL, Haseltine WA, Cummings RD. J Virol. 1993 Feb;67(2):943-52. .

1991

gp160 of HIV-I synthesized by persistently infected Molt-3 cells is terminally glycosylated: evidence that cleavage of gp160 occurs subsequent to oligosaccharide processing. Merkle RK, Helland DE, Welles JL, Shilatifard A, Haseltine WA, Cummings RD Arch Biochem Biophys. 1991 Oct;290(1):248-57.

Molecular Cell Oct 2014

Science Aug 2014

Cancer Cell Aug 2014

Molecular Cell Mar 2014

Nature Struc Mol Biol Mar 2014

Genes and Development Jan 2014