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Items: 39

1.

Systematic perturbation of retroviral LTRs reveals widespread long-range effects on human gene regulation.

Fuentes DR, Swigut T, Wysocka J.

Elife. 2018 Aug 2;7. pii: e35989. doi: 10.7554/eLife.35989.

2.

Genome-wide mapping of global-to-local genetic effects on human facial shape.

Claes P, Roosenboom J, White JD, Swigut T, Sero D, Li J, Lee MK, Zaidi A, Mattern BC, Liebowitz C, Pearson L, González T, Leslie EJ, Carlson JC, Orlova E, Suetens P, Vandermeulen D, Feingold E, Marazita ML, Shaffer JR, Wysocka J, Shriver MD, Weinberg SM.

Nat Genet. 2018 Mar;50(3):414-423. doi: 10.1038/s41588-018-0057-4. Epub 2018 Feb 19.

3.

Transcription-coupled changes in nuclear mobility of mammalian cis-regulatory elements.

Gu B, Swigut T, Spencley A, Bauer MR, Chung M, Meyer T, Wysocka J.

Science. 2018 Mar 2;359(6379):1050-1055. doi: 10.1126/science.aao3136. Epub 2018 Jan 25.

4.

Tissue-selective effects of nucleolar stress and rDNA damage in developmental disorders.

Calo E, Gu B, Bowen ME, Aryan F, Zalc A, Liang J, Flynn RA, Swigut T, Chang HY, Attardi LD, Wysocka J.

Nature. 2018 Feb 1;554(7690):112-117. doi: 10.1038/nature25449. Epub 2018 Jan 24.

5.

Selective silencing of euchromatic L1s revealed by genome-wide screens for L1 regulators.

Liu N, Lee CH, Swigut T, Grow E, Gu B, Bassik MC, Wysocka J.

Nature. 2018 Jan 11;553(7687):228-232. doi: 10.1038/nature25179. Epub 2017 Dec 6.

6.

Transcription-Replication Conflict Orientation Modulates R-Loop Levels and Activates Distinct DNA Damage Responses.

Hamperl S, Bocek MJ, Saldivar JC, Swigut T, Cimprich KA.

Cell. 2017 Aug 10;170(4):774-786.e19. doi: 10.1016/j.cell.2017.07.043.

7.

Mll3 and Mll4 Facilitate Enhancer RNA Synthesis and Transcription from Promoters Independently of H3K4 Monomethylation.

Dorighi KM, Swigut T, Henriques T, Bhanu NV, Scruggs BS, Nady N, Still CD 2nd, Garcia BA, Adelman K, Wysocka J.

Mol Cell. 2017 May 18;66(4):568-576.e4. doi: 10.1016/j.molcel.2017.04.018. Epub 2017 May 5.

8.

Transcriptional Dependencies in Diffuse Intrinsic Pontine Glioma.

Nagaraja S, Vitanza NA, Woo PJ, Taylor KR, Liu F, Zhang L, Li M, Meng W, Ponnuswami A, Sun W, Ma J, Hulleman E, Swigut T, Wysocka J, Tang Y, Monje M.

Cancer Cell. 2017 May 8;31(5):635-652.e6. doi: 10.1016/j.ccell.2017.03.011. Epub 2017 Apr 20.

9.

A CD47-associated super-enhancer links pro-inflammatory signalling to CD47 upregulation in breast cancer.

Betancur PA, Abraham BJ, Yiu YY, Willingham SB, Khameneh F, Zarnegar M, Kuo AH, McKenna K, Kojima Y, Leeper NJ, Ho P, Gip P, Swigut T, Sherwood RI, Clarke MF, Somlo G, Young RA, Weissman IL.

Nat Commun. 2017 Apr 5;8:14802. doi: 10.1038/ncomms14802.

10.

Zika Virus Infection Induces Cranial Neural Crest Cells to Produce Cytokines at Levels Detrimental for Neurogenesis.

Bayless NL, Greenberg RS, Swigut T, Wysocka J, Blish CA.

Cell Host Microbe. 2016 Oct 12;20(4):423-428. doi: 10.1016/j.chom.2016.09.006. Epub 2016 Sep 29.

11.

Co-transcriptional R-loops are the main cause of estrogen-induced DNA damage.

Stork CT, Bocek M, Crossley MP, Sollier J, Sanz LA, Chédin F, Swigut T, Cimprich KA.

Elife. 2016 Aug 23;5. pii: e17548. doi: 10.7554/eLife.17548.

12.

ETO family protein Mtgr1 mediates Prdm14 functions in stem cell maintenance and primordial germ cell formation.

Nady N, Gupta A, Ma Z, Swigut T, Koide A, Koide S, Wysocka J.

Elife. 2015 Nov 2;4:e10150. doi: 10.7554/eLife.10150.

13.

Enhancer divergence and cis-regulatory evolution in the human and chimp neural crest.

Prescott SL, Srinivasan R, Marchetto MC, Grishina I, Narvaiza I, Selleri L, Gage FH, Swigut T, Wysocka J.

Cell. 2015 Sep 24;163(1):68-83. doi: 10.1016/j.cell.2015.08.036. Epub 2015 Sep 10.

14.

Distinct transcriptional responses elicited by unfolded nuclear or cytoplasmic protein in mammalian cells.

Miyazaki Y, Chen LC, Chu BW, Swigut T, Wandless TJ.

Elife. 2015 Aug 28;4. doi: 10.7554/eLife.07687.

15.

Reorganization of enhancer patterns in transition from naive to primed pluripotency.

Buecker C, Srinivasan R, Wu Z, Calo E, Acampora D, Faial T, Simeone A, Tan M, Swigut T, Wysocka J.

Cell Stem Cell. 2014 Jun 5;14(6):838-53. doi: 10.1016/j.stem.2014.04.003.

16.

Epigenomic annotation of enhancers predicts transcriptional regulators of human neural crest.

Rada-Iglesias A, Bajpai R, Prescott S, Brugmann SA, Swigut T, Wysocka J.

Cell Stem Cell. 2012 Nov 2;11(5):633-48. doi: 10.1016/j.stem.2012.07.006. Epub 2012 Sep 13.

17.

Sequence-specific regulator Prdm14 safeguards mouse ESCs from entering extraembryonic endoderm fates.

Ma Z, Swigut T, Valouev A, Rada-Iglesias A, Wysocka J.

Nat Struct Mol Biol. 2011 Feb;18(2):120-7. doi: 10.1038/nsmb.2000. Epub 2010 Dec 23.

PMID:
21183938
18.

A unique chromatin signature uncovers early developmental enhancers in humans.

Rada-Iglesias A, Bajpai R, Swigut T, Brugmann SA, Flynn RA, Wysocka J.

Nature. 2011 Feb 10;470(7333):279-83. doi: 10.1038/nature09692. Epub 2010 Dec 15.

19.

CHD7 cooperates with PBAF to control multipotent neural crest formation.

Bajpai R, Chen DA, Rada-Iglesias A, Zhang J, Xiong Y, Helms J, Chang CP, Zhao Y, Swigut T, Wysocka J.

Nature. 2010 Feb 18;463(7283):958-62. doi: 10.1038/nature08733. Epub 2010 Feb 3.

20.

Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells.

Peng JC, Valouev A, Swigut T, Zhang J, Zhao Y, Sidow A, Wysocka J.

Cell. 2009 Dec 24;139(7):1290-302. doi: 10.1016/j.cell.2009.12.002.

21.

Fallen immortals.

Swigut T, Wysocka J.

Cell. 2009 Apr 17;137(2):203-5. doi: 10.1016/j.cell.2009.04.008.

22.

Chromatin remodelling factor Mll1 is essential for neurogenesis from postnatal neural stem cells.

Lim DA, Huang YC, Swigut T, Mirick AL, Garcia-Verdugo JM, Wysocka J, Ernst P, Alvarez-Buylla A.

Nature. 2009 Mar 26;458(7237):529-33. doi: 10.1038/nature07726. Epub 2009 Feb 11.

23.

H3K27 demethylases, at long last.

Swigut T, Wysocka J.

Cell. 2007 Oct 5;131(1):29-32. Review.

24.

Contribution of human embryonic stem cells to mouse blastocysts.

James D, Noggle SA, Swigut T, Brivanlou AH.

Dev Biol. 2006 Jul 1;295(1):90-102.

25.

A PHD finger of NURF couples histone H3 lysine 4 trimethylation with chromatin remodelling.

Wysocka J, Swigut T, Xiao H, Milne TA, Kwon SY, Landry J, Kauer M, Tackett AJ, Chait BT, Badenhorst P, Wu C, Allis CD.

Nature. 2006 Jul 6;442(7098):86-90. Epub 2006 May 21.

PMID:
16728976
26.

Importance of the N-distal AP-2 binding element in Nef for simian immunodeficiency virus replication and pathogenicity in rhesus macaques.

Brenner M, Münch J, Schindler M, Wildum S, Stolte N, Stahl-Hennig C, Fuchs D, Mätz-Rensing K, Franz M, Heeney J, Ten Haaft P, Swigut T, Hrecka K, Skowronski J, Kirchhoff F.

J Virol. 2006 May;80(9):4469-81.

27.
28.

WDR5 associates with histone H3 methylated at K4 and is essential for H3 K4 methylation and vertebrate development.

Wysocka J, Swigut T, Milne TA, Dou Y, Zhang X, Burlingame AL, Roeder RG, Brivanlou AH, Allis CD.

Cell. 2005 Jun 17;121(6):859-72.

29.

Impact of Nef-mediated downregulation of major histocompatibility complex class I on immune response to simian immunodeficiency virus.

Swigut T, Alexander L, Morgan J, Lifson J, Mansfield KG, Lang S, Johnson RP, Skowronski J, Desrosiers R.

J Virol. 2004 Dec;78(23):13335-44.

30.

HIV-1 Nef binds the DOCK2-ELMO1 complex to activate rac and inhibit lymphocyte chemotaxis.

Janardhan A, Swigut T, Hill B, Myers MP, Skowronski J.

PLoS Biol. 2004 Jan;2(1):E6. Epub 2004 Jan 20.

31.

Signaling but not trafficking function of HIV-1 protein Nef is essential for Nef-induced defects in human intrathymic T-cell development.

Stove V, Naessens E, Stove C, Swigut T, Plum J, Verhasselt B.

Blood. 2003 Oct 15;102(8):2925-32. Epub 2003 Jul 10.

33.

T-cell receptor:CD3 down-regulation is a selected in vivo function of simian immunodeficiency virus Nef but is not sufficient for effective viral replication in rhesus macaques.

Münch J, Janardhan A, Stolte N, Stahl-Hennig C, Ten Haaft P, Heeney JL, Swigut T, Kirchhoff F, Skowronski J.

J Virol. 2002 Dec;76(23):12360-4.

34.

Mechanism for down-regulation of CD28 by Nef.

Swigut T, Shohdy N, Skowronski J.

EMBO J. 2001 Apr 2;20(7):1593-604.

35.

HIV and SIV Nef modulate signal transduction and protein sorting in T cells.

Skowronski J, Greenberg ME, Lock M, Mariani R, Salghetti S, Swigut T, Iafrate AJ.

Cold Spring Harb Symp Quant Biol. 1999;64:453-63. Review. No abstract available.

PMID:
11232322
36.

Disrupting surfaces of nef required for downregulation of CD4 and for enhancement of virion infectivity attenuates simian immunodeficiency virus replication in vivo.

Iafrate AJ, Carl S, Bronson S, Stahl-Hennig C, Swigut T, Skowronski J, Kirchhoff F.

J Virol. 2000 Nov;74(21):9836-44. Erratum in: J Virol 2000 Dec;74(24):12002.

37.
38.

The human immunodeficiency virus type 1 nef gene can to a large extent replace simian immunodeficiency virus nef in vivo.

Kirchhoff F, Münch J, Carl S, Stolte N, Mätz-Rensing K, Fuchs D, Haaft PT, Heeney JL, Swigut T, Skowronski J, Stahl-Hennig C.

J Virol. 1999 Oct;73(10):8371-83.

39.

Two elements target SIV Nef to the AP-2 clathrin adaptor complex, but only one is required for the induction of CD4 endocytosis.

Lock M, Greenberg ME, Iafrate AJ, Swigut T, Muench J, Kirchhoff F, Shohdy N, Skowronski J.

EMBO J. 1999 May 17;18(10):2722-33.

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