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Items: 1 to 50 of 205

1.

Distinct Activities of Myf5 and MyoD Indicate Separate Roles in Skeletal Muscle Lineage Specification and Differentiation.

Conerly ML, Yao Z, Zhong JW, Groudine M, Tapscott SJ.

Dev Cell. 2016 Feb 22;36(4):375-85. doi: 10.1016/j.devcel.2016.01.021.

2.

Prelamin A processing, accumulation and distribution in normal cells and laminopathy disorders.

Casasola A, Scalzo D, Nandakumar V, Halow J, Recillas-Targa F, Groudine M, Rincón-Arano H.

Nucleus. 2016;7(1):84-102. doi: 10.1080/19491034.2016.1150397.

3.

The redundancy of the mammalian heterochromatic compartment.

Politz JCR, Scalzo D, Groudine M.

Curr Opin Genet Dev. 2016 Apr;37:1-8. doi: 10.1016/j.gde.2015.10.007. Epub 2015 Dec 17. Review.

4.

Olfactory receptor genes expressed in distinct lineages are sequestered in different nuclear compartments.

Yoon KH, Ragoczy T, Lu Z, Kondoh K, Kuang D, Groudine M, Buck LB.

Proc Natl Acad Sci U S A. 2015 May 5;112(18):E2403-9. doi: 10.1073/pnas.1506058112. Epub 2015 Apr 20.

5.

Wash interacts with lamin and affects global nuclear organization.

Verboon JM, Rincon-Arano H, Werwie TR, Delrow JJ, Scalzo D, Nandakumar V, Groudine M, Parkhurst SM.

Curr Biol. 2015 Mar 16;25(6):804-810. doi: 10.1016/j.cub.2015.01.052. Epub 2015 Mar 5.

6.

An acetyl-methyl switch drives a conformational change in p53.

Tong Q, Mazur SJ, Rincon-Arano H, Rothbart SB, Kuznetsov DM, Cui G, Liu WH, Gete Y, Klein BJ, Jenkins L, Mer G, Kutateladze AG, Strahl BD, Groudine M, Appella E, Kutateladze TG.

Structure. 2015 Feb 3;23(2):322-31. doi: 10.1016/j.str.2014.12.010.

7.

Functional redundancy in the nuclear compartmentalization of the late-replicating genome.

Ragoczy T, Telling A, Scalzo D, Kooperberg C, Groudine M.

Nucleus. 2014;5(6):626-35. doi: 10.4161/19491034.2014.990863.

8.

Nucleolar tethering mediates pairing between the IgH and Myc loci.

Strongin DE, Groudine M, Politz JC.

Nucleus. 2014 Sep-Oct;5(5):474-81. doi: 10.4161/nucl.36233.

9.

Mouse regulatory DNA landscapes reveal global principles of cis-regulatory evolution.

Vierstra J, Rynes E, Sandstrom R, Zhang M, Canfield T, Hansen RS, Stehling-Sun S, Sabo PJ, Byron R, Humbert R, Thurman RE, Johnson AK, Vong S, Lee K, Bates D, Neri F, Diegel M, Giste E, Haugen E, Dunn D, Wilken MS, Josefowicz S, Samstein R, Chang KH, Eichler EE, De Bruijn M, Reh TA, Skoultchi A, Rudensky A, Orkin SH, Papayannopoulou T, Treuting PM, Selleri L, Kaul R, Groudine M, Bender MA, Stamatoyannopoulos JA.

Science. 2014 Nov 21;346(6212):1007-12. doi: 10.1126/science.1246426.

10.

Conservation of trans-acting circuitry during mammalian regulatory evolution.

Stergachis AB, Neph S, Sandstrom R, Haugen E, Reynolds AP, Zhang M, Byron R, Canfield T, Stelhing-Sun S, Lee K, Thurman RE, Vong S, Bates D, Neri F, Diegel M, Giste E, Dunn D, Vierstra J, Hansen RS, Johnson AK, Sabo PJ, Wilken MS, Reh TA, Treuting PM, Kaul R, Groudine M, Bender MA, Borenstein E, Stamatoyannopoulos JA.

Nature. 2014 Nov 20;515(7527):365-70. doi: 10.1038/nature13972.

11.

A comparative encyclopedia of DNA elements in the mouse genome.

Yue F, Cheng Y, Breschi A, Vierstra J, Wu W, Ryba T, Sandstrom R, Ma Z, Davis C, Pope BD, Shen Y, Pervouchine DD, Djebali S, Thurman RE, Kaul R, Rynes E, Kirilusha A, Marinov GK, Williams BA, Trout D, Amrhein H, Fisher-Aylor K, Antoshechkin I, DeSalvo G, See LH, Fastuca M, Drenkow J, Zaleski C, Dobin A, Prieto P, Lagarde J, Bussotti G, Tanzer A, Denas O, Li K, Bender MA, Zhang M, Byron R, Groudine MT, McCleary D, Pham L, Ye Z, Kuan S, Edsall L, Wu YC, Rasmussen MD, Bansal MS, Kellis M, Keller CA, Morrissey CS, Mishra T, Jain D, Dogan N, Harris RS, Cayting P, Kawli T, Boyle AP, Euskirchen G, Kundaje A, Lin S, Lin Y, Jansen C, Malladi VS, Cline MS, Erickson DT, Kirkup VM, Learned K, Sloan CA, Rosenbloom KR, Lacerda de Sousa B, Beal K, Pignatelli M, Flicek P, Lian J, Kahveci T, Lee D, Kent WJ, Ramalho Santos M, Herrero J, Notredame C, Johnson A, Vong S, Lee K, Bates D, Neri F, Diegel M, Canfield T, Sabo PJ, Wilken MS, Reh TA, Giste E, Shafer A, Kutyavin T, Haugen E, Dunn D, Reynolds AP, Neph S, Humbert R, Hansen RS, De Bruijn M, Selleri L, Rudensky A, Josefowicz S, Samstein R, Eichler EE, Orkin SH, Levasseur D, Papayannopoulou T, Chang KH, Skoultchi A, Gosh S, Disteche C, Treuting P, Wang Y, Weiss MJ, Blobel GA, Cao X, Zhong S, Wang T, Good PJ, Lowdon RF, Adams LB, Zhou XQ, Pazin MJ, Feingold EA, Wold B, Taylor J, Mortazavi A, Weissman SM, Stamatoyannopoulos JA, Snyder MP, Guigo R, Gingeras TR, Gilbert DM, Hardison RC, Beer MA, Ren B; Mouse ENCODE Consortium.

Nature. 2014 Nov 20;515(7527):355-64. doi: 10.1038/nature13992.

12.

The nucleosomal barrier to promoter escape by RNA polymerase II is overcome by the chromatin remodeler Chd1.

Skene PJ, Hernandez AE, Groudine M, Henikoff S.

Elife. 2014 Apr 15;3:e02042. doi: 10.7554/eLife.02042.

13.

The histone-H3K4-specific demethylase KDM5B binds to its substrate and product through distinct PHD fingers.

Klein BJ, Piao L, Xi Y, Rincon-Arano H, Rothbart SB, Peng D, Wen H, Larson C, Zhang X, Zheng X, Cortazar MA, Peña PV, Mangan A, Bentley DL, Strahl BD, Groudine M, Li W, Shi X, Kutateladze TG.

Cell Rep. 2014 Jan 30;6(2):325-35. doi: 10.1016/j.celrep.2013.12.021. Epub 2014 Jan 9.

14.

Something silent this way forms: the functional organization of the repressive nuclear compartment.

Politz JC, Scalzo D, Groudine M.

Annu Rev Cell Dev Biol. 2013;29:241-70. doi: 10.1146/annurev-cellbio-101512-122317. Epub 2013 Jul 5. Review.

15.

Dido3 PHD modulates cell differentiation and division.

Gatchalian J, Fütterer A, Rothbart SB, Tong Q, Rincon-Arano H, Sánchez de Diego A, Groudine M, Strahl BD, Martínez-A C, van Wely KH, Kutateladze TG.

Cell Rep. 2013 Jul 11;4(1):148-58. doi: 10.1016/j.celrep.2013.06.014. Epub 2013 Jul 3.

16.

Molecular basis for chromatin binding and regulation of MLL5.

Ali M, Rincón-Arano H, Zhao W, Rothbart SB, Tong Q, Parkhurst SM, Strahl BD, Deng LW, Groudine M, Kutateladze TG.

Proc Natl Acad Sci U S A. 2013 Jul 9;110(28):11296-301. doi: 10.1073/pnas.1310156110. Epub 2013 Jun 24.

17.

When untethered, something silent inside comes.

Politz JC, Ragoczy T, Groudine M.

Nucleus. 2013 May-Jun;4(3):153-5. doi: 10.4161/nucl.24999. Epub 2013 May 15.

18.

UpSET-ting the balance: modulating open chromatin features in metazoan genomes.

Rincon-Arano H, Parkhurst SM, Groudine M.

Fly (Austin). 2013 Jul-Sep;7(3):153-60. doi: 10.4161/fly.24732. Epub 2013 May 6.

19.

UpSET recruits HDAC complexes and restricts chromatin accessibility and acetylation at promoter regions.

Rincon-Arano H, Halow J, Delrow JJ, Parkhurst SM, Groudine M.

Cell. 2012 Dec 7;151(6):1214-28. doi: 10.1016/j.cell.2012.11.009. Epub 2012 Nov 21.

20.

An expansive human regulatory lexicon encoded in transcription factor footprints.

Neph S, Vierstra J, Stergachis AB, Reynolds AP, Haugen E, Vernot B, Thurman RE, John S, Sandstrom R, Johnson AK, Maurano MT, Humbert R, Rynes E, Wang H, Vong S, Lee K, Bates D, Diegel M, Roach V, Dunn D, Neri J, Schafer A, Hansen RS, Kutyavin T, Giste E, Weaver M, Canfield T, Sabo P, Zhang M, Balasundaram G, Byron R, MacCoss MJ, Akey JM, Bender MA, Groudine M, Kaul R, Stamatoyannopoulos JA.

Nature. 2012 Sep 6;489(7414):83-90. doi: 10.1038/nature11212.

21.

An encyclopedia of mouse DNA elements (Mouse ENCODE).

Mouse ENCODE Consortium, Stamatoyannopoulos JA, Snyder M, Hardison R, Ren B, Gingeras T, Gilbert DM, Groudine M, Bender M, Kaul R, Canfield T, Giste E, Johnson A, Zhang M, Balasundaram G, Byron R, Roach V, Sabo PJ, Sandstrom R, Stehling AS, Thurman RE, Weissman SM, Cayting P, Hariharan M, Lian J, Cheng Y, Landt SG, Ma Z, Wold BJ, Dekker J, Crawford GE, Keller CA, Wu W, Morrissey C, Kumar SA, Mishra T, Jain D, Byrska-Bishop M, Blankenberg D, Lajoie BR, Jain G, Sanyal A, Chen KB, Denas O, Taylor J, Blobel GA, Weiss MJ, Pimkin M, Deng W, Marinov GK, Williams BA, Fisher-Aylor KI, Desalvo G, Kiralusha A, Trout D, Amrhein H, Mortazavi A, Edsall L, McCleary D, Kuan S, Shen Y, Yue F, Ye Z, Davis CA, Zaleski C, Jha S, Xue C, Dobin A, Lin W, Fastuca M, Wang H, Guigo R, Djebali S, Lagarde J, Ryba T, Sasaki T, Malladi VS, Cline MS, Kirkup VM, Learned K, Rosenbloom KR, Kent WJ, Feingold EA, Good PJ, Pazin M, Lowdon RF, Adams LB.

Genome Biol. 2012 Aug 13;13(8):418. doi: 10.1186/gb-2012-13-8-418.

22.

What can systems theory of networks offer to biology?

Rajapakse I, Groudine M, Mesbahi M.

PLoS Comput Biol. 2012;8(6):e1002543. doi: 10.1371/journal.pcbi.1002543. Epub 2012 Jun 28. No abstract available.

23.

The hypersensitive sites of the murine β-globin locus control region act independently to affect nuclear localization and transcriptional elongation.

Bender MA, Ragoczy T, Lee J, Byron R, Telling A, Dean A, Groudine M.

Blood. 2012 Apr 19;119(16):3820-7. doi: 10.1182/blood-2011-09-380485. Epub 2012 Feb 29.

24.

Losing control: cancer's catastrophic transition.

Rajapakse I, Scalzo D, Groudine M.

Nucleus. 2011 Jul-Aug;2(4):249-52. doi: 10.4161/nucl.2.4.16506. Epub 2011 Jul 1.

25.

Dynamics and control of state-dependent networks for probing genomic organization.

Rajapakse I, Groudine M, Mesbahi M.

Proc Natl Acad Sci U S A. 2011 Oct 18;108(42):17257-62. doi: 10.1073/pnas.1113249108. Epub 2011 Sep 12.

26.

A functional element necessary for fetal hemoglobin silencing.

Sankaran VG, Xu J, Byron R, Greisman HA, Fisher C, Weatherall DJ, Sabath DE, Groudine M, Orkin SH, Premawardhena A, Bender MA.

N Engl J Med. 2011 Sep 1;365(9):807-14. doi: 10.1056/NEJMoa1103070.

27.

Cohesin mediates chromatin interactions that regulate mammalian β-globin expression.

Chien R, Zeng W, Kawauchi S, Bender MA, Santos R, Gregson HC, Schmiesing JA, Newkirk DA, Kong X, Ball AR Jr, Calof AL, Lander AD, Groudine MT, Yokomori K.

J Biol Chem. 2011 May 20;286(20):17870-8. doi: 10.1074/jbc.M110.207365. Epub 2011 Mar 29.

28.

On emerging nuclear order.

Rajapakse I, Groudine M.

J Cell Biol. 2011 Mar 7;192(5):711-21. doi: 10.1083/jcb.201010129. Review.

29.

Functional and mechanistic diversity of distal transcription enhancers.

Bulger M, Groudine M.

Cell. 2011 Feb 4;144(3):327-39. doi: 10.1016/j.cell.2011.01.024. Review. Erratum in: Cell. 2011 Mar 4;144(5):825.

30.

Networking the nucleus.

Rajapakse I, Scalzo D, Tapscott SJ, Kosak ST, Groudine M.

Mol Syst Biol. 2010 Jul;6:395. doi: 10.1038/msb.2010.48. Review.

31.

Multiple functions of Ldb1 required for beta-globin activation during erythroid differentiation.

Song SH, Kim A, Ragoczy T, Bender MA, Groudine M, Dean A.

Blood. 2010 Sep 30;116(13):2356-64. doi: 10.1182/blood-2010-03-272252. Epub 2010 Jun 22.

32.

Getting connected in the globin interactome.

Ragoczy T, Groudine M.

Nat Genet. 2010 Jan;42(1):16-7. doi: 10.1038/ng0110-16.

PMID:
20037614
33.

Enhancers: the abundance and function of regulatory sequences beyond promoters.

Bulger M, Groudine M.

Dev Biol. 2010 Mar 15;339(2):250-7. doi: 10.1016/j.ydbio.2009.11.035. Epub 2009 Dec 16. Review.

34.

Comprehensive mapping of long-range interactions reveals folding principles of the human genome.

Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, Sandstrom R, Bernstein B, Bender MA, Groudine M, Gnirke A, Stamatoyannopoulos J, Mirny LA, Lander ES, Dekker J.

Science. 2009 Oct 9;326(5950):289-93. doi: 10.1126/science.1181369.

35.

Histone hyperacetylation within the beta-globin locus is context-dependent and precedes high-level gene expression.

Fromm G, de Vries C, Byron R, Fields J, Fiering S, Groudine M, Bender MA, Palis J, Bulger M.

Blood. 2009 Oct 15;114(16):3479-88. doi: 10.1182/blood-2009-03-210690. Epub 2009 Aug 18.

36.

Developmental and species-divergent globin switching are driven by BCL11A.

Sankaran VG, Xu J, Ragoczy T, Ippolito GC, Walkley CR, Maika SD, Fujiwara Y, Ito M, Groudine M, Bender MA, Tucker PW, Orkin SH.

Nature. 2009 Aug 27;460(7259):1093-7. doi: 10.1038/nature08243. Epub 2009 Aug 5.

37.

The nucleus inside out--through a rod darkly.

Ragoczy T, Groudine M.

Cell. 2009 Apr 17;137(2):205-7. doi: 10.1016/j.cell.2009.04.006.

38.

The emergence of lineage-specific chromosomal topologies from coordinate gene regulation.

Rajapakse I, Perlman MD, Scalzo D, Kooperberg C, Groudine M, Kosak ST.

Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6679-84. doi: 10.1073/pnas.0900986106. Epub 2009 Mar 10.

39.

Bivalent domains enforce transcriptional memory of DNA methylated genes in cancer cells.

Rodriguez J, Muñoz M, Vives L, Frangou CG, Groudine M, Peinado MA.

Proc Natl Acad Sci U S A. 2008 Dec 16;105(50):19809-14. doi: 10.1073/pnas.0810133105. Epub 2008 Dec 5.

40.

H3 K79 dimethylation marks developmental activation of the beta-globin gene but is reduced upon LCR-mediated high-level transcription.

Sawado T, Halow J, Im H, Ragoczy T, Bresnick EH, Bender MA, Groudine M.

Blood. 2008 Jul 15;112(2):406-14. doi: 10.1182/blood-2007-12-128983. Epub 2008 Apr 25.

41.

Coordinate gene regulation during hematopoiesis is related to genomic organization.

Kosak ST, Scalzo D, Alworth SV, Li F, Palmer S, Enver T, Lee JS, Groudine M.

PLoS Biol. 2007 Nov;5(11):e309.

42.

Activator-mediated recruitment of the MLL2 methyltransferase complex to the beta-globin locus.

Demers C, Chaturvedi CP, Ranish JA, Juban G, Lai P, Morle F, Aebersold R, Dilworth FJ, Groudine M, Brand M.

Mol Cell. 2007 Aug 17;27(4):573-84.

43.

An unmethylated 3' promoter-proximal region is required for efficient transcription initiation.

Appanah R, Dickerson DR, Goyal P, Groudine M, Lorincz MC.

PLoS Genet. 2007 Feb 16;3(2):e27. Epub 2007 Jan 2.

44.

Transcriptional interference among the murine beta-like globin genes.

Hu X, Eszterhas S, Pallazzi N, Bouhassira EE, Fields J, Tanabe O, Gerber SA, Bulger M, Engel JD, Groudine M, Fiering S.

Blood. 2007 Mar 1;109(5):2210-6. Epub 2006 Oct 31.

45.

The locus control region is required for association of the murine beta-globin locus with engaged transcription factories during erythroid maturation.

Ragoczy T, Bender MA, Telling A, Byron R, Groudine M.

Genes Dev. 2006 Jun 1;20(11):1447-57. Epub 2006 May 16.

46.

Flanking HS-62.5 and 3' HS1, and regions upstream of the LCR, are not required for beta-globin transcription.

Bender MA, Byron R, Ragoczy T, Telling A, Bulger M, Groudine M.

Blood. 2006 Aug 15;108(4):1395-401. Epub 2006 Apr 27.

47.
48.

Proximity among distant regulatory elements at the beta-globin locus requires GATA-1 and FOG-1.

Vakoc CR, Letting DL, Gheldof N, Sawado T, Bender MA, Groudine M, Weiss MJ, Dekker J, Blobel GA.

Mol Cell. 2005 Feb 4;17(3):453-62.

49.

DNA replication-timing analysis of human chromosome 22 at high resolution and different developmental states.

White EJ, Emanuelsson O, Scalzo D, Royce T, Kosak S, Oakeley EJ, Weissman S, Gerstein M, Groudine M, Snyder M, Schübeler D.

Proc Natl Acad Sci U S A. 2004 Dec 21;101(51):17771-6. Epub 2004 Dec 10.

50.

Gene order and dynamic domains.

Kosak ST, Groudine M.

Science. 2004 Oct 22;306(5696):644-7.

PMID:
15499009

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