Michael J Pazin

Michael J Pazin

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Michael J Pazin

Michael J Pazin

Publications by authors named "Michael J Pazin"

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Using the ENCODE Resource for Functional Annotation of Genetic Variants.

Authors:
Michael J Pazin

Cold Spring Harb Protoc 2015 Mar 11;2015(6):522-36. Epub 2015 Mar 11.

Division of Genome Sciences, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892.

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http://dx.doi.org/10.1101/pdb.top084988DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4521767PMC
March 2015

A comparative encyclopedia of DNA elements in the mouse genome.

Authors:
Feng Yue Yong Cheng Alessandra Breschi Jeff Vierstra Weisheng Wu Tyrone Ryba Richard Sandstrom Zhihai Ma Carrie Davis Benjamin D Pope Yin Shen Dmitri D Pervouchine Sarah Djebali Robert E Thurman Rajinder Kaul Eric Rynes Anthony Kirilusha Georgi K Marinov Brian A Williams Diane Trout Henry Amrhein Katherine Fisher-Aylor Igor Antoshechkin Gilberto DeSalvo Lei-Hoon See Meagan Fastuca Jorg Drenkow Chris Zaleski Alex Dobin Pablo Prieto Julien Lagarde Giovanni Bussotti Andrea Tanzer Olgert Denas Kanwei Li M A Bender Miaohua Zhang Rachel Byron Mark T Groudine David McCleary Long Pham Zhen Ye Samantha Kuan Lee Edsall Yi-Chieh Wu Matthew D Rasmussen Mukul S Bansal Manolis Kellis Cheryl A Keller Christapher S Morrissey Tejaswini Mishra Deepti Jain Nergiz Dogan Robert S Harris Philip Cayting Trupti Kawli Alan P Boyle Ghia Euskirchen Anshul Kundaje Shin Lin Yiing Lin Camden Jansen Venkat S Malladi Melissa S Cline Drew T Erickson Vanessa M Kirkup Katrina Learned Cricket A Sloan Kate R Rosenbloom Beatriz Lacerda de Sousa Kathryn Beal Miguel Pignatelli Paul Flicek Jin Lian Tamer Kahveci Dongwon Lee W James Kent Miguel Ramalho Santos Javier Herrero Cedric Notredame Audra Johnson Shinny Vong Kristen Lee Daniel Bates Fidencio Neri Morgan Diegel Theresa Canfield Peter J Sabo Matthew S Wilken Thomas A Reh Erika Giste Anthony Shafer Tanya Kutyavin Eric Haugen Douglas Dunn Alex P Reynolds Shane Neph Richard Humbert R Scott Hansen Marella De Bruijn Licia Selleri Alexander Rudensky Steven Josefowicz Robert Samstein Evan E Eichler Stuart H Orkin Dana Levasseur Thalia Papayannopoulou Kai-Hsin Chang Arthur Skoultchi Srikanta Gosh Christine Disteche Piper Treuting Yanli Wang Mitchell J Weiss Gerd A Blobel Xiaoyi Cao Sheng Zhong Ting Wang Peter J Good Rebecca F Lowdon Leslie B Adams Xiao-Qiao Zhou Michael J Pazin Elise A Feingold Barbara Wold James Taylor Ali Mortazavi Sherman M Weissman John A Stamatoyannopoulos Michael P Snyder Roderic Guigo Thomas R Gingeras David M Gilbert Ross C Hardison Michael A Beer Bing Ren

Nature 2014 Nov;515(7527):355-64

Ludwig Institute for Cancer Research and University of California, San Diego School of Medicine, 9500 Gilman Drive, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/nature13992DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266106PMC
November 2014

Comparative analysis of the transcriptome across distant species.

Nature 2014 Aug;512(7515):445-8

1] Department of Genome Sciences and University of Washington School of Medicine, William H. Foege Building S350D, 1705 Northeast Pacific Street, Box 355065 Seattle, Washington 98195-5065, USA [2].

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http://dx.doi.org/10.1038/nature13424DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4155737PMC
August 2014

Comparative analysis of metazoan chromatin organization.

Nature 2014 Aug;512(7515):449-52

1] Center for Biomedical Informatics, Harvard Medical School, Boston, Massachusetts 02115, USA [2] Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA [3] Informatics Program, Children's Hospital, Boston, Massachusetts 02215, USA.

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http://dx.doi.org/10.1038/nature13415DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4227084PMC
August 2014

CHD5, a brain-specific paralog of Mi2 chromatin remodeling enzymes, regulates expression of neuronal genes.

PLoS One 2011 13;6(9):e24515. Epub 2011 Sep 13.

Laboratory of Molecular Biology and Immunology, National Institute on Aging Intramural Research Program, National Institutes of Health, Baltimore, Maryland, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0024515PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3172237PMC
June 2012

ATP-dependent chromatin remodeling in T cells.

Biochem Cell Biol 2012 Feb 14;90(1):1-13. Epub 2011 Oct 14.

National Institute on Aging, Intramural Research Program, Laboratory of Molecular Biology and Immunology, Biomedical Research Center, Baltimore, MD 21224, USA.

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http://dx.doi.org/10.1139/o11-042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3424609PMC
February 2012

IL-10 transcription is negatively regulated by BAF180, a component of the SWI/SNF chromatin remodeling enzyme.

BMC Immunol 2012 Feb 15;13. Epub 2012 Feb 15.

Laboratory of Molecular Biology and Immunology, National Institute on Aging Intramural Research Program, National Institutes of Health, Baltimore, USA.

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http://bmcimmunol.biomedcentral.com/articles/10.1186/1471-21
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http://dx.doi.org/10.1186/1471-2172-13-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3313858PMC
February 2012

Molecular changes in brain aging and Alzheimer's disease are mirrored in experimentally silenced cortical neuron networks.

Neurobiol Aging 2012 Jan 13;33(1):205.e1-18. Epub 2010 Oct 13.

Laboratory of Neurosciences, National Institute on Aging, Intramural Research Program, Biomedical Research Center, Baltimore, MD 21224, USA.

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http://dx.doi.org/10.1016/j.neurobiolaging.2010.08.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3027841PMC
January 2012

NF-κB and BRG1 bind a distal regulatory element in the IL-3/GM-CSF locus.

Mol Immunol 2011 Sep 9;48(15-16):2178-88. Epub 2011 Aug 9.

Laboratory of Molecular Biology and Immunology, National Institute on Aging Intramural Research Program, National Institutes of Health, USA.

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http://dx.doi.org/10.1016/j.molimm.2011.07.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3163777PMC
September 2011

Nontelomeric splice variant of telomere repeat-binding factor 2 maintains neuronal traits by sequestering repressor element 1-silencing transcription factor.

Proc Natl Acad Sci U S A 2011 Sep 8;108(39):16434-9. Epub 2011 Sep 8.

Laboratories of Neurosciences, National Institute on Aging Intramural Research Program, Baltimore, MD 21224, USA

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http://www.pnas.org/cgi/doi/10.1073/pnas.1106906108
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http://dx.doi.org/10.1073/pnas.1106906108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3182730PMC
September 2011

Dynamic BRG1 recruitment during T helper differentiation and activation reveals distal regulatory elements.

Mol Cell Biol 2011 Apr 24;31(7):1512-27. Epub 2011 Jan 24.

Research Resources Branch, National Institute on Aging, NIH, Baltimore, Maryland 21224, USA.

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http://mcb.asm.org/cgi/doi/10.1128/MCB.00920-10
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http://dx.doi.org/10.1128/MCB.00920-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3135292PMC
April 2011

Activation of heat shock factor 1 plays a role in pyrrolidine dithiocarbamate-mediated expression of the co-chaperone BAG3.

Int J Biochem Cell Biol 2010 Nov 6;42(11):1856-63. Epub 2010 Aug 6.

Laboratory of Clinical Investigation, National Institute on Aging, National Institutes of Health, Baltimore, MD 21224, USA.

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http://dx.doi.org/10.1016/j.biocel.2010.07.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2950225PMC
November 2010

The SNF2H chromatin remodeling enzyme has opposing effects on cytokine gene expression.

Mol Immunol 2010 Jul 15;47(11-12):2038-46. Epub 2010 May 15.

Laboratory of Cellular and Molecular Biology, National Institute on Aging, NIH, Baltimore, MD 21224, USA.

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http://dx.doi.org/10.1016/j.molimm.2010.04.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2891439PMC
July 2010

S-glutathionylation impairs signal transducer and activator of transcription 3 activation and signaling.

Endocrinology 2009 Mar 6;150(3):1122-31. Epub 2008 Nov 6.

Laboratories of Clinical Investigation, National Institute on Aging, National Institutes of Health, Baltimore, Maryland 21224, USA.

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http://dx.doi.org/10.1210/en.2008-1241DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2654735PMC
March 2009

Mi2beta shows chromatin enzyme specificity by erasing a DNase I-hypersensitive site established by ACF.

J Biol Chem 2009 Mar 21;284(12):7533-41. Epub 2009 Jan 21.

Graduate Program in Biophysics and Structural Biology, Brandeis University, Waltham, Massachusetts 02454, USA.

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http://dx.doi.org/10.1074/jbc.M807617200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2658048PMC
March 2009

BRG1-mediated chromatin remodeling regulates differentiation and gene expression of T helper cells.

Mol Cell Biol 2008 Dec 13;28(24):7274-85. Epub 2008 Oct 13.

Laboratory of Cellular and Molecular Biology, National Institute on Aging, National Institutes of Health, Baltimore, Maryland 21224, USA.

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http://dx.doi.org/10.1128/MCB.00835-08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2593447PMC
December 2008

Nontelomeric TRF2-REST interaction modulates neuronal gene silencing and fate of tumor and stem cells.

Curr Biol 2008 Oct 25;18(19):1489-94. Epub 2008 Sep 25.

Laboratory of Neurosciences, National Institute on Aging Intramural Research Program, Baltimore, Maryland 21224, USA.

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http://dx.doi.org/10.1016/j.cub.2008.08.048DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2576494PMC
October 2008

Activation of 12/23-RSS-dependent RAG cleavage by hSWI/SNF complex in the absence of transcription.

Mol Cell 2008 Sep;31(5):641-9

Laboratory of Cellular and Molecular Biology, National Institute on Aging, Baltimore, MD 21224, USA.

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http://dx.doi.org/10.1016/j.molcel.2008.08.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4589277PMC
September 2008

Regulation of the CLDN3 gene in ovarian cancer cells.

Cancer Biol Ther 2007 Nov 3;6(11):1733-42. Epub 2007 Aug 3.

Laboratory of Cellular and Molecular Biology, National Institute on Aging, Baltimore, Maryland, USA.

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http://dx.doi.org/10.4161/cbt.6.11.4832DOI Listing
November 2007

Preparation of nuclear extracts from Drosophila embryos.

Authors:
Michael J Pazin

CSH Protoc 2007 Mar 1;2007:pdb.prot4709. Epub 2007 Mar 1.

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http://dx.doi.org/10.1101/pdb.prot4709DOI Listing
March 2007

In vitro transcription using Drosophila nuclear extracts.

Authors:
Michael J Pazin

CSH Protoc 2007 Mar 1;2007:pdb.prot4710. Epub 2007 Mar 1.

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http://dx.doi.org/10.1101/pdb.prot4710DOI Listing
March 2007

Crucial roles of Sp1 and epigenetic modifications in the regulation of the CLDN4 promoter in ovarian cancer cells.

J Biol Chem 2006 Jul 19;281(30):21433-44. Epub 2006 May 19.

Laboratory of Cellular and Molecular Biology, NIA, National Institutes of Health, Baltimore, Maryland 21224, USA.

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http://dx.doi.org/10.1074/jbc.M603767200DOI Listing
July 2006

Histone H4-K16 acetylation controls chromatin structure and protein interactions.

Science 2006 Feb;311(5762):844-7

Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01605, USA.

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http://dx.doi.org/10.1126/science.1124000DOI Listing
February 2006

Combinatorial control of DNase I-hypersensitive site formation and erasure by immunoglobulin heavy chain enhancer-binding proteins.

J Biol Chem 2004 Feb 1;279(8):7331-8. Epub 2003 Dec 1.

Graduate Program in Biophysics and Structural Biology, Brandeis University, Waltham, Massachusetts 02454, USA.

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http://dx.doi.org/10.1074/jbc.M308973200DOI Listing
February 2004

Properties of ets-1 binding to chromatin and its effect on platelet factor 4 gene expression.

Mol Cell Biol 2004 Jan;24(1):428-41

Department of Biochemistry, Cancer Center, Boston University School of Medicine, Boston, Massachusetts 02118, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC303331PMC
http://dx.doi.org/10.1128/mcb.24.1.428-441.2004DOI Listing
January 2004