Publications by authors named "Jonghwan Kim"

77Publications

Evidence of higher-order topology in multilayer WTe from Josephson coupling through anisotropic hinge states.

Nat Mater 2020 Sep 6;19(9):974-979. Epub 2020 Jul 6.

Department of Physics, Pohang University of Science and Technology, Pohang, Republic of Korea.

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http://dx.doi.org/10.1038/s41563-020-0721-9DOI Listing
September 2020

Systematic Discovery of Endogenous Human Ribonucleoprotein Complexes.

Cell Rep 2019 10;29(5):1351-1368.e5

Department of Molecular Biosciences, University of Texas at Austin, Austin, TX 78712, USA; Center for Systems and Synthetic Biology, University of Texas at Austin, Austin, TX 78712, USA; Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, TX 78712, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.09.060DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6873818PMC
October 2019

Super-enhancer-guided mapping of regulatory networks controlling mouse trophoblast stem cells.

Nat Commun 2019 10 18;10(1):4749. Epub 2019 Oct 18.

Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX, 78712, USA.

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http://dx.doi.org/10.1038/s41467-019-12720-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6802173PMC
October 2019

Atomically thin three-dimensional membranes of van der Waals semiconductors by wafer-scale growth.

Sci Adv 2019 Jul 26;5(7):eaaw3180. Epub 2019 Jul 26.

Center for Artificial Low Dimensional Electronic Systems, Institute for Basic Science (IBS), Pohang 37673, Republic of Korea.

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http://dx.doi.org/10.1126/sciadv.aaw3180DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6660212PMC
July 2019

TAF5L and TAF6L Maintain Self-Renewal of Embryonic Stem Cells via the MYC Regulatory Network.

Mol Cell 2019 06 17;74(6):1148-1163.e7. Epub 2019 Apr 17.

Department of Anatomy and Developmental Biology, Monash University, Wellington Road, Clayton, VIC 3800, Australia; Development and Stem Cells Program, Monash Biomedicine Discovery Institute, Wellington Road, Clayton, VIC 3800, Australia. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S10972765193022
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http://dx.doi.org/10.1016/j.molcel.2019.03.025DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6671628PMC
June 2019

Author Correction: ZSCAN10 expression corrects the genomic instability of iPSCs from aged donors.

Nat Cell Biol 2019 04;21(4):531-532

Cancer Biology and Genetics Program, Center for Cell Engineering, Center for Stem Cell Biology, Memorial Sloan Kettering Cancer Center, Sloan Kettering Institute for Cancer Research, and Department of Cell and Developmental Biology, Weill Medical College of Cornell University, New York, New York, 10065, USA.

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http://www.nature.com/articles/s41556-018-0269-y
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http://dx.doi.org/10.1038/s41556-018-0269-yDOI Listing
April 2019

Homeodomain Proteins Directly Regulate ATM Kinase Activity.

Cell Rep 2018 08;24(6):1471-1483

Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX 78712, USA; Howard Hughes Medical Institute, The University of Texas at Austin, Austin, TX 78712, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2018.06.089DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6127865PMC
August 2018

Tumor penetrating peptides inhibiting MYC as a potent targeted therapeutic strategy for triple-negative breast cancers.

Oncogene 2019 01 3;38(1):140-150. Epub 2018 Aug 3.

Harry Perkins Institute of Medical Research, QEII Medical Centre, Nedlands and Centre for Medical Research, The University of Western Australia, Crawley, WA, 6009, Australia.

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http://dx.doi.org/10.1038/s41388-018-0421-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6318000PMC
January 2019

The role of momentum-dark excitons in the elementary optical response of bilayer WSe.

Nat Commun 2018 07 3;9(1):2586. Epub 2018 Jul 3.

Fakultät für Physik, Munich Quantum Center, and Center for NanoScience (CeNS), Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, D-80539, München, Germany.

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http://dx.doi.org/10.1038/s41467-018-04877-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030057PMC
July 2018

Imaging of pure spin-valley diffusion current in WS-WSe heterostructures.

Science 2018 05 24;360(6391):893-896. Epub 2018 May 24.

Department of Physics, University of California at Berkeley, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1126/science.aao3503DOI Listing
May 2018

Implications of CpG islands on chromosomal architectures and modes of global gene regulation.

Nucleic Acids Res 2018 05;46(9):4382-4391

Department of Molecular Biosciences, The University of Texas at Austin, Austin, Texas 78712, USA.

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http://dx.doi.org/10.1093/nar/gky147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5961348PMC
May 2018

Fosl1 overexpression directly activates trophoblast-specific gene expression programs in embryonic stem cells.

Stem Cell Res 2018 01 13;26:95-102. Epub 2017 Dec 13.

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX 78712, United States. Electronic address:

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http://dx.doi.org/10.1016/j.scr.2017.12.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5899959PMC
January 2018

Mechanisms of transcription factor-mediated direct reprogramming of mouse embryonic stem cells to trophoblast stem-like cells.

Nucleic Acids Res 2017 Sep;45(17):10103-10114

Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX 78712, USA.

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http://dx.doi.org/10.1093/nar/gkx692DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5737334PMC
September 2017

ZSCAN10 expression corrects the genomic instability of iPSCs from aged donors.

Nat Cell Biol 2017 Sep 28;19(9):1037-1048. Epub 2017 Aug 28.

Cancer Biology and Genetics Program, Center for Cell Engineering, Center for Stem Cell Biology, Memorial Sloan Kettering Cancer Center, Sloan Kettering Institute for Cancer Research, and Department of Cell and Developmental Biology, Weill Medical College of Cornell University, New York, New York 10065, USA.

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http://dx.doi.org/10.1038/ncb3598DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5843481PMC
September 2017

Observation of ultralong valley lifetime in WSe/MoS heterostructures.

Sci Adv 2017 07 26;3(7):e1700518. Epub 2017 Jul 26.

Department of Physics, University of California, Berkeley, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1126/sciadv.1700518DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5529060PMC
July 2017

Ethylene induces combinatorial effects of histone H3 acetylation in gene expression in Arabidopsis.

BMC Genomics 2017 07 17;18(1):538. Epub 2017 Jul 17.

Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, 78712, Texas, USA.

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http://dx.doi.org/10.1186/s12864-017-3929-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5512946PMC
July 2017

Fbxl19 recruitment to CpG islands is required for Rnf20-mediated H2B mono-ubiquitination.

Nucleic Acids Res 2017 Jul;45(12):7151-7166

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX 78712, USA.

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http://dx.doi.org/10.1093/nar/gkx310DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5499583PMC
July 2017

Transcriptional Regulation of the First Cell Fate Decision.

J Dev Biol Regen Med 2017 26;1(1). Epub 2017 Oct 26.

Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, 78712, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5897107PMC
October 2017

ARID3A is required for mammalian placenta development.

Dev Biol 2017 02 11;422(2):83-91. Epub 2016 Dec 11.

Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX 78712, United States; Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX 78712, United States. Electronic address:

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http://dx.doi.org/10.1016/j.ydbio.2016.12.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5540318PMC
February 2017

Direct observation of the layer-dependent electronic structure in phosphorene.

Nat Nanotechnol 2017 01 19;12(1):21-25. Epub 2016 Sep 19.

Department of Physics, University of California at Berkeley, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1038/nnano.2016.171DOI Listing
January 2017

BMI1-UBR5 axis regulates transcriptional repression at damaged chromatin.

Proc Natl Acad Sci U S A 2016 10 19;113(40):11243-11248. Epub 2016 Sep 19.

Department of Cell Biology, Microbiology, and Molecular Biology, College of Arts and Sciences, University of South Florida, Tampa, FL 33620;

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http://dx.doi.org/10.1073/pnas.1610735113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056041PMC
October 2016

Pathogen Infection and MORC Proteins Affect Chromatin Accessibility of Transposable Elements and Expression of Their Proximal Genes in Arabidopsis.

Mol Plant Microbe Interact 2016 09 26;29(9):674-687. Epub 2016 Sep 26.

1 Department of Biology, Texas State University, San Marcos, TX, U.S.A.

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http://dx.doi.org/10.1094/MPMI-01-16-0023-RDOI Listing
September 2016

Soliton-dependent plasmon reflection at bilayer graphene domain walls.

Nat Mater 2016 08 30;15(8):840-4. Epub 2016 May 30.

Department of Physics, University of California at Berkeley, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1038/nmat4653DOI Listing
August 2016

Electronic Structure, Surface Doping, and Optical Response in Epitaxial WSe2 Thin Films.

Nano Lett 2016 Apr 17;16(4):2485-91. Epub 2016 Mar 17.

Advanced Light Source, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/acs.nanolett.6b00059DOI Listing
April 2016

Yap1 is dispensable for self-renewal but required for proper differentiation of mouse embryonic stem (ES) cells.

EMBO Rep 2016 04 25;17(4):519-29. Epub 2016 Feb 25.

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX, USA

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http://dx.doi.org/10.15252/embr.201540933DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4818770PMC
April 2016

The Pluripotency Factor NANOG Binds to GLI Proteins and Represses Hedgehog-mediated Transcription.

J Biol Chem 2016 Mar 21;291(13):7171-82. Epub 2016 Jan 21.

From the Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, and

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http://dx.doi.org/10.1074/jbc.M116.714857DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4807297PMC
March 2016

Tgif1 Counterbalances the Activity of Core Pluripotency Factors in Mouse Embryonic Stem Cells.

Cell Rep 2015 Oct 24;13(1):52-60. Epub 2015 Sep 24.

Department of Molecular Biosciences, the University of Texas at Austin, Austin, TX 78712, USA; Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, the University of Texas at Austin, Austin, TX 78712, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2015.08.067DOI Listing
October 2015

PRC2 Is Required to Maintain Expression of the Maternal Gtl2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells.

Cell Rep 2015 Sep 20;12(9):1456-70. Epub 2015 Aug 20.

Division of Hematology/Oncology, Boston Children's Hospital and Department of Pediatric Oncology, Dana-Farber Cancer Institute (DFCI), Harvard Stem Cell Institute, Harvard Medical School, Boston, MA 02115, USA; Howard Hughes Medical Institute (HHMI), Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2015.07.053DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5384103PMC
September 2015

Ultrafast generation of pseudo-magnetic field for valley excitons in WSe₂ monolayers.

Science 2014 Dec;346(6214):1205-8

Department of Physics, University of California at Berkeley, Berkeley, CA 94720, USA. Material Science Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA. Kavli Energy NanoSciences Institute, University of California Berkeley and Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1126/science.1258122DOI Listing
December 2014

CpG island-mediated global gene regulatory modes in mouse embryonic stem cells.

Nat Commun 2014 Nov 18;5:5490. Epub 2014 Nov 18.

1] Department of Molecular Biosciences, The University of Texas at Austin, Austin, Texas 78712, USA [2] Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, Texas 78712, USA [3] Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, Texas 78712, USA.

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http://dx.doi.org/10.1038/ncomms6490DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4236720PMC
November 2014

Three-dimensional spirals of atomic layered MoS2.

Nano Lett 2014 Nov 28;14(11):6418-23. Epub 2014 Oct 28.

Department of Chemistry and ‡Department of Physics, University of California at Berkeley , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/nl502961eDOI Listing
November 2014

Arid3a is essential to execution of the first cell fate decision via direct embryonic and extraembryonic transcriptional regulation.

Genes Dev 2014 Oct;28(20):2219-32

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, Texas 78712, USA

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http://dx.doi.org/10.1101/gad.247163.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4201284PMC
October 2014

Global transcriptional profiling reveals distinct functions of thymic stromal subsets and age-related changes during thymic involution.

Cell Rep 2014 Oct 2;9(1):402-415. Epub 2014 Oct 2.

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX 78712, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.08.070DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4194175PMC
October 2014

Multi-layered global gene regulation in mouse embryonic stem cells.

Cell Mol Life Sci 2015 Jan 17;72(2):199-216. Epub 2014 Sep 17.

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX, 78712, USA.

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http://dx.doi.org/10.1007/s00018-014-1734-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4284393PMC
January 2015

Ultrafast charge transfer in atomically thin MoS₂/WS₂ heterostructures.

Nat Nanotechnol 2014 Sep 24;9(9):682-6. Epub 2014 Aug 24.

1] Department of Physics, University of California at Berkeley, Berkeley, California 94720, USA [2] Materials Science Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA [3] Kavli Energy NanoSciences Institute at the University of California, Berkeley and the Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA.

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http://mse.berkeley.edu/~jwu/publications/Hong-NatureNanotec
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http://www.nature.com/doifinder/10.1038/nnano.2014.167
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http://dx.doi.org/10.1038/nnano.2014.167DOI Listing
September 2014

Probing local strain at MX(2)-metal boundaries with surface plasmon-enhanced Raman scattering.

Nano Lett 2014 Sep 22;14(9):5329-34. Epub 2014 Aug 22.

Department of Physics and ‡Department of Materials Science and Engineering, University of California at Berkeley , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/nl5023767DOI Listing
September 2014

Staufen1-mediated mRNA decay induces Requiem mRNA decay through binding of Staufen1 to the Requiem 3'UTR.

Nucleic Acids Res 2014 Jun 5;42(11):6999-7011. Epub 2014 May 5.

Department of Life Science and Research Institute for Natural Sciences, College of Natural Sciences

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http://dx.doi.org/10.1093/nar/gku388DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4066795PMC
June 2014

Electrical control of silicon photonic crystal cavity by graphene.

Nano Lett 2013 Feb 8;13(2):515-8. Epub 2013 Jan 8.

Department of Physics, University of California at Berkeley, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/nl3039212DOI Listing
February 2013

Electrical control of optical plasmon resonance with graphene.

Nano Lett 2012 Nov 4;12(11):5598-602. Epub 2012 Oct 4.

Department of Physics, University of California at Berkeley, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/nl302656dDOI Listing
November 2012

The response of the prostate to circulating cholesterol: activating transcription factor 3 (ATF3) as a prominent node in a cholesterol-sensing network.

PLoS One 2012 2;7(7):e39448. Epub 2012 Jul 2.

Division of Cancer Biology and Therapeutics, Departments of Surgery and Biomedical Sciences, Samuel Oschin Comprehensive Cancer Institute, Cedars-Sinai Medical Center, Los Angeles, California, USA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0039448PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3388073PMC
November 2012

Embryonic stem cell-specific signatures in cancer: insights into genomic regulatory networks and implications for medicine.

Genome Med 2011 Nov 29;3(11):75. Epub 2011 Nov 29.

Department of Pediatric Oncology, Children's Hospital and Dana Farber Cancer Institute, Harvard Stem Cell Institute, Harvard Medical School, Howard Hughes Medical Institute, Boston, MA 02115, USA.

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http://dx.doi.org/10.1186/gm291DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3308030PMC
November 2011

Role of ZBP-89 in human globin gene regulation and erythroid differentiation.

Blood 2011 Sep 9;118(13):3684-93. Epub 2011 Aug 9.

Division of Pediatric Hematology/Oncology, Children's Hospital Boston and Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA, USA.

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http://dx.doi.org/10.1182/blood-2011-03-341446DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3186340PMC
September 2011

A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs.

Cell 2010 Oct;143(2):313-24

Department of Pediatric Oncology, Children's Hospital and Dana Farber Cancer Institute, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.cell.2010.09.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3018841PMC
October 2010

Sumoylation regulates interaction of FOG1 with C-terminal-binding protein (CTBP).

J Biol Chem 2010 Sep 28;285(36):28064-75. Epub 2010 Jun 28.

Division of Hematology/Oncology, Children's Hospital, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1074/jbc.M109.096909DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2934671PMC
September 2010

Hypoxia-inducible factor-2alpha is a catabolic regulator of osteoarthritic cartilage destruction.

Nat Med 2010 Jun 23;16(6):687-93. Epub 2010 May 23.

Cell Dynamics Research Center, School of Life Sciences, Gwangju Institute of Science and Technology, Gwangju, Korea.

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http://dx.doi.org/10.1038/nm.2153DOI Listing
June 2010

Emerging photoluminescence in monolayer MoS2.

Nano Lett 2010 Apr;10(4):1271-5

Physics Department, University of California at Berkeley, Berkeley, California 94720, USA.

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https://pdfs.semanticscholar.org/0780/214d740e8706c1cda92fb8
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http://li.mit.edu/S/2d/Paper/Splendiani10Sun.pdf
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http://dx.doi.org/10.1021/nl903868wDOI Listing
April 2010

Systematic tracking of cell fate changes.

Nat Biotechnol 2010 Feb;28(2):146-7

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http://dx.doi.org/10.1038/nbt0210-146DOI Listing
February 2010

DNA methyltransferase 1 is essential for and uniquely regulates hematopoietic stem and progenitor cells.

Cell Stem Cell 2009 Oct;5(4):442-9

Department of Pediatric Oncology, Dana-Farber Cancer Institute and Division of Hematology/Oncology, Children's Hospital Boston, Harvard Stem Cell Institute, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.stem.2009.08.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2767228PMC
October 2009

A genome-wide RNAi screen identifies a new transcriptional module required for self-renewal.

Genes Dev 2009 Apr;23(7):837-48

Howard Hughes Medical Institute, Department of Genetics, Division of Genetics, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1101/gad.1769609DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2666338PMC
April 2009

Use of in vivo biotinylation to study protein-protein and protein-DNA interactions in mouse embryonic stem cells.

Nat Protoc 2009 26;4(4):506-17. Epub 2009 Mar 26.

Division of Hematology-Oncology, Department of Pediatric Oncology, Children's Hospital and the Dana Farber Cancer Institute, Harvard Medical School, Harvard Stem Cell Institute, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nprot.2009.23DOI Listing
June 2009

EZH1 mediates methylation on histone H3 lysine 27 and complements EZH2 in maintaining stem cell identity and executing pluripotency.

Mol Cell 2008 Nov;32(4):491-502

Department of Pediatric Oncology, Dana-Farber Cancer Institute, Children's Hospital and Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.molcel.2008.10.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2630502PMC
November 2008

Global identification of Myc target genes reveals its direct role in mitochondrial biogenesis and its E-box usage in vivo.

PLoS One 2008 Mar 12;3(3):e1798. Epub 2008 Mar 12.

Section of Molecular Genetics and Microbiology, Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0001798PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2258436PMC
March 2008

Identifying chromosomal targets of DNA-binding proteins by Sequence Tag Analysis of Genomic Enrichment (STAGE).

Curr Protoc Mol Biol 2005 Nov;Chapter 21:Unit 21.10

University of Texas at Austin, Austin, Texas, USA.

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http://dx.doi.org/10.1002/0471142727.mb2110s72DOI Listing
November 2005

Epigenetic regulation of hematopoietic differentiation by Gfi-1 and Gfi-1b is mediated by the cofactors CoREST and LSD1.

Mol Cell 2007 Aug;27(4):562-72

Division of Hematology-Oncology, Children's Hospital Boston, Boston, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.molcel.2007.06.039DOI Listing
August 2007

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.

Authors:
Ewan Birney John A Stamatoyannopoulos Anindya Dutta Roderic Guigó Thomas R Gingeras Elliott H Margulies Zhiping Weng Michael Snyder Emmanouil T Dermitzakis Robert E Thurman Michael S Kuehn Christopher M Taylor Shane Neph Christoph M Koch Saurabh Asthana Ankit Malhotra Ivan Adzhubei Jason A Greenbaum Robert M Andrews Paul Flicek Patrick J Boyle Hua Cao Nigel P Carter Gayle K Clelland Sean Davis Nathan Day Pawandeep Dhami Shane C Dillon Michael O Dorschner Heike Fiegler Paul G Giresi Jeff Goldy Michael Hawrylycz Andrew Haydock Richard Humbert Keith D James Brett E Johnson Ericka M Johnson Tristan T Frum Elizabeth R Rosenzweig Neerja Karnani Kirsten Lee Gregory C Lefebvre Patrick A Navas Fidencio Neri Stephen C J Parker Peter J Sabo Richard Sandstrom Anthony Shafer David Vetrie Molly Weaver Sarah Wilcox Man Yu Francis S Collins Job Dekker Jason D Lieb Thomas D Tullius Gregory E Crawford Shamil Sunyaev William S Noble Ian Dunham France Denoeud Alexandre Reymond Philipp Kapranov Joel Rozowsky Deyou Zheng Robert Castelo Adam Frankish Jennifer Harrow Srinka Ghosh Albin Sandelin Ivo L Hofacker Robert Baertsch Damian Keefe Sujit Dike Jill Cheng Heather A Hirsch Edward A Sekinger Julien Lagarde Josep F Abril Atif Shahab Christoph Flamm Claudia Fried Jörg Hackermüller Jana Hertel Manja Lindemeyer Kristin Missal Andrea Tanzer Stefan Washietl Jan Korbel Olof Emanuelsson Jakob S Pedersen Nancy Holroyd Ruth Taylor David Swarbreck Nicholas Matthews Mark C Dickson Daryl J Thomas Matthew T Weirauch James Gilbert Jorg Drenkow Ian Bell XiaoDong Zhao K G Srinivasan Wing-Kin Sung Hong Sain Ooi Kuo Ping Chiu Sylvain Foissac Tyler Alioto Michael Brent Lior Pachter Michael L Tress Alfonso Valencia Siew Woh Choo Chiou Yu Choo Catherine Ucla Caroline Manzano Carine Wyss Evelyn Cheung Taane G Clark James B Brown Madhavan Ganesh Sandeep Patel Hari Tammana Jacqueline Chrast Charlotte N Henrichsen Chikatoshi Kai Jun Kawai Ugrappa Nagalakshmi Jiaqian Wu Zheng Lian Jin Lian Peter Newburger Xueqing Zhang Peter Bickel John S Mattick Piero Carninci Yoshihide Hayashizaki Sherman Weissman Tim Hubbard Richard M Myers Jane Rogers Peter F Stadler Todd M Lowe Chia-Lin Wei Yijun Ruan Kevin Struhl Mark Gerstein Stylianos E Antonarakis Yutao Fu Eric D Green Ulaş Karaöz Adam Siepel James Taylor Laura A Liefer Kris A Wetterstrand Peter J Good Elise A Feingold Mark S Guyer Gregory M Cooper George Asimenos Colin N Dewey Minmei Hou Sergey Nikolaev Juan I Montoya-Burgos Ari Löytynoja Simon Whelan Fabio Pardi Tim Massingham Haiyan Huang Nancy R Zhang Ian Holmes James C Mullikin Abel Ureta-Vidal Benedict Paten Michael Seringhaus Deanna Church Kate Rosenbloom W James Kent Eric A Stone Serafim Batzoglou Nick Goldman Ross C Hardison David Haussler Webb Miller Arend Sidow Nathan D Trinklein Zhengdong D Zhang Leah Barrera Rhona Stuart David C King Adam Ameur Stefan Enroth Mark C Bieda Jonghwan Kim Akshay A Bhinge Nan Jiang Jun Liu Fei Yao Vinsensius B Vega Charlie W H Lee Patrick Ng Atif Shahab Annie Yang Zarmik Moqtaderi Zhou Zhu Xiaoqin Xu Sharon Squazzo Matthew J Oberley David Inman Michael A Singer Todd A Richmond Kyle J Munn Alvaro Rada-Iglesias Ola Wallerman Jan Komorowski Joanna C Fowler Phillippe Couttet Alexander W Bruce Oliver M Dovey Peter D Ellis Cordelia F Langford David A Nix Ghia Euskirchen Stephen Hartman Alexander E Urban Peter Kraus Sara Van Calcar Nate Heintzman Tae Hoon Kim Kun Wang Chunxu Qu Gary Hon Rosa Luna Christopher K Glass M Geoff Rosenfeld Shelley Force Aldred Sara J Cooper Anason Halees Jane M Lin Hennady P Shulha Xiaoling Zhang Mousheng Xu Jaafar N S Haidar Yong Yu Yijun Ruan Vishwanath R Iyer Roland D Green Claes Wadelius Peggy J Farnham Bing Ren Rachel A Harte Angie S Hinrichs Heather Trumbower Hiram Clawson Jennifer Hillman-Jackson Ann S Zweig Kayla Smith Archana Thakkapallayil Galt Barber Robert M Kuhn Donna Karolchik Lluis Armengol Christine P Bird Paul I W de Bakker Andrew D Kern Nuria Lopez-Bigas Joel D Martin Barbara E Stranger Abigail Woodroffe Eugene Davydov Antigone Dimas Eduardo Eyras Ingileif B Hallgrímsdóttir Julian Huppert Michael C Zody Gonçalo R Abecasis Xavier Estivill Gerard G Bouffard Xiaobin Guan Nancy F Hansen Jacquelyn R Idol Valerie V B Maduro Baishali Maskeri Jennifer C McDowell Morgan Park Pamela J Thomas Alice C Young Robert W Blakesley Donna M Muzny Erica Sodergren David A Wheeler Kim C Worley Huaiyang Jiang George M Weinstock Richard A Gibbs Tina Graves Robert Fulton Elaine R Mardis Richard K Wilson Michele Clamp James Cuff Sante Gnerre David B Jaffe Jean L Chang Kerstin Lindblad-Toh Eric S Lander Maxim Koriabine Mikhail Nefedov Kazutoyo Osoegawa Yuko Yoshinaga Baoli Zhu Pieter J de Jong
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Mapping the chromosomal targets of STAT1 by Sequence Tag Analysis of Genomic Enrichment (STAGE).

Genome Res 2007 Jun;17(6):910-6

Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712, USA.

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http://dx.doi.org/10.1101/gr.5574907DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891349PMC
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http://dx.doi.org/10.1016/S1673-8527(07)60025-3DOI Listing
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FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin.

Genome Res 2007 Jun 19;17(6):877-85. Epub 2006 Dec 19.

Department of Biology and the Carolina Center for Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-3280, USA.

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http://dx.doi.org/10.1101/gr.5533506DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891346PMC
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Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology & Section of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, Texas 78712-0159, USA.

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http://dx.doi.org/10.1038/nmeth726DOI Listing
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Global role of TATA box-binding protein recruitment to promoters in mediating gene expression profiles.

Mol Cell Biol 2004 Sep;24(18):8104-12

Institute for Cellular and Molecular Biology and Section of Molecular Genetics and Microbiology, University of Texas at Austin, 78712-0159, USA.

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http://dx.doi.org/10.1128/MCB.24.18.8104-8112.2004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC515063PMC
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