Yuanxin Xi

Yuanxin Xi

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Yuanxin Xi

Yuanxin Xi

Publications by authors named "Yuanxin Xi"

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36Publications

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The genomic landscape of estrogen receptor α binding sites in mouse mammary gland.

PLoS One 2019 13;14(8):e0220311. Epub 2019 Aug 13.

Dan L. Duncan Cancer Center, Baylor College of Medicine, Houston, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0220311PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6692022PMC
August 2019

Enhancer transcription reveals subtype-specific gene expression programs controlling breast cancer pathogenesis.

Genome Res 2018 02 22;28(2):159-170. Epub 2017 Dec 22.

Laboratory of Signaling and Gene Regulation, Cecil H. and Ida Green Center for Reproductive Biology Sciences and Division of Basic Reproductive Biology Research, Department of Obstetrics and Gynecology, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA.

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http://dx.doi.org/10.1101/gr.226019.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5793780PMC
February 2018

Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes.

BMC Genomics 2018 02 20;19(1):150. Epub 2018 Feb 20.

The Department of Epigenetics and Molecular Carcinogenesis, University of Texas Graduate School of Biomedical Sciences at Houston and The Center for Cancer Epigenetics, University of Texas M.D. Anderson Cancer Center, Houston, Texas, 77030, USA.

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http://dx.doi.org/10.1186/s12864-018-4533-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5819162PMC
February 2018

YEATS2 links histone acetylation to tumorigenesis of non-small cell lung cancer.

Nat Commun 2017 10 20;8(1):1088. Epub 2017 Oct 20.

Department of Epigenetics and Molecular Carcinogenesis, The University of Texas M.D. Anderson Cancer Center, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1038/s41467-017-01173-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5651844PMC
October 2017

ENL links histone acetylation to oncogenic gene expression in acute myeloid leukaemia.

Nature 2017 03 1;543(7644):265-269. Epub 2017 Mar 1.

Department of Epigenetics and Molecular Carcinogenesis, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/nature21687DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5372383PMC
March 2017

BAP1 inhibits the ER stress gene regulatory network and modulates metabolic stress response.

Proc Natl Acad Sci U S A 2017 03 8;114(12):3192-3197. Epub 2017 Mar 8.

Department of Experimental Radiation Oncology, University of Texas MD Anderson Cancer Center, Houston, TX 77030;

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http://dx.doi.org/10.1073/pnas.1619588114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5373337PMC
March 2017

LncPRESS1 Is a p53-Regulated LncRNA that Safeguards Pluripotency by Disrupting SIRT6-Mediated De-acetylation of Histone H3K56.

Mol Cell 2016 12;64(5):967-981

Department of Epigenetics and Molecular Carcinogenesis, University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Center for Stem Cell and Development Biology, University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; Center for Cancer Epigenetics, University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA; University of Texas Graduate School of Biomedical Sciences at Houston, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.10.039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5137794PMC
December 2016

FOXR2 Interacts with MYC to Promote Its Transcriptional Activities and Tumorigenesis.

Cell Rep 2016 07 23;16(2):487-497. Epub 2016 Jun 23.

Department of Experimental Radiation Oncology, University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.06.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4946253PMC
July 2016

SIRT6 deacetylates H3K18ac at pericentric chromatin to prevent mitotic errors and cellular senescence.

Nat Struct Mol Biol 2016 05 4;23(5):434-40. Epub 2016 Apr 4.

Department of Medicine, Stanford University School of Medicine, Stanford, California, USA.

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http://dx.doi.org/10.1038/nsmb.3202DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5826646PMC
May 2016

G9a-mediated methylation of ERα links the PHF20/MOF histone acetyltransferase complex to hormonal gene expression.

Nat Commun 2016 Mar 10;7:10810. Epub 2016 Mar 10.

Department of Epigenetics and Molecular Carcinogenesis, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA.

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http://www.nature.com/articles/ncomms10810
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http://dx.doi.org/10.1038/ncomms10810DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4792926PMC
March 2016

Broad H3K4me3 is associated with increased transcription elongation and enhancer activity at tumor-suppressor genes.

Nat Genet 2015 Oct 24;47(10):1149-57. Epub 2015 Aug 24.

Division of Biostatistics, Dan L. Duncan Cancer Center, Baylor College of Medicine, Houston, Texas, USA.

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http://dx.doi.org/10.1038/ng.3385DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4780747PMC
October 2015

Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes.

Mol Syst Biol 2015 Jan 21;11(1):775. Epub 2015 Jan 21.

Department of Experimental Radiation Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA

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http://msb.embopress.org/cgi/doi/10.15252/msb.20145504
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4332150PMC
http://dx.doi.org/10.15252/msb.20145504DOI Listing
January 2015

AF9 YEATS domain links histone acetylation to DOT1L-mediated H3K79 methylation.

Cell 2014 Oct;159(3):558-71

Department of Molecular Carcinogenesis, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA; Center for Cancer Epigenetics, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA; Genes and Development and Molecular Carcinogenesis Graduate Programs, The University of Texas Graduate School of Biomedical Sciences, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.09.049DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4344132PMC
October 2014

ZMYND11 links histone H3.3K36me3 to transcription elongation and tumour suppression.

Nature 2014 Apr 2;508(7495):263-8. Epub 2014 Mar 2.

1] Department of Biochemistry and Molecular Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA [2] Center for Cancer Epigenetics, Center for Genetics and Genomics, and Center for Stem Cell and Developmental Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030, USA [3] Genes and Development Graduate Program, The University of Texas Graduate School of Biomedical Sciences, Houston, Teaxs 77030, USA.

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http://dx.doi.org/10.1038/nature13045DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4142212PMC
April 2014

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

Cell Rep 2014 Jan 9;6(2):325-35. Epub 2014 Jan 9.

Department of Pharmacology, University of Colorado School of Medicine, Aurora, CO 80045, USA; Molecular Biology Program, University of Colorado School of Medicine, Aurora, CO 80045, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2013.12.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3918441PMC
January 2014

DANPOS: dynamic analysis of nucleosome position and occupancy by sequencing.

Genome Res 2013 Feb 28;23(2):341-51. Epub 2012 Nov 28.

Division of Biostatistics, Dan L Duncan Cancer Center and Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas 77030, USA.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.142067.112
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http://dx.doi.org/10.1101/gr.142067.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3561875PMC
February 2013

RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing.

Bioinformatics 2012 Feb 6;28(3):430-2. Epub 2011 Dec 6.

Division of Biostatistics, Dan L Duncan Cancer Center and Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr668DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3268241PMC
February 2012

Research resource: The estrogen receptor α cistrome defined by DamIP.

Mol Endocrinol 2012 Feb 29;26(2):349-57. Epub 2011 Dec 29.

Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1210/me.2011-1080DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3384088PMC
February 2012

Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation.

Genome Res 2011 May 1;21(5):718-24. Epub 2011 Mar 1.

Division of Biostatistics, Dan L. Duncan Cancer Center and Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1101/gr.117101.110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3083088PMC
May 2011

In vivo Atoh1 targetome reveals how a proneural transcription factor regulates cerebellar development.

Proc Natl Acad Sci U S A 2011 Feb 7;108(8):3288-93. Epub 2011 Feb 7.

Department of Molecular and Human Genetics, The Howard Hughes Medical Institute, The Dan L Duncan Cancer Center, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1073/pnas.1100230108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3044384PMC
February 2011

Genome-wide reinforcement of cohesin binding at pre-existing cohesin sites in response to ionizing radiation in human cells.

J Biol Chem 2010 Jul 25;285(30):22784-92. Epub 2010 May 25.

Center for Molecular Discovery, Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1074/jbc.M110.134577DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2906269PMC
July 2010

A statistical method for the detection of alternative splicing using RNA-seq.

PLoS One 2010 Jan 8;5(1):e8529. Epub 2010 Jan 8.

Division of Biostatistics, Dan L. Duncan Cancer Center, Baylor College of Medicine, Houston, Texas, USA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0008529PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2798953PMC
January 2010

BSMAP: whole genome bisulfite sequence MAPping program.

Authors:
Yuanxin Xi Wei Li

BMC Bioinformatics 2009 Jul 27;10:232. Epub 2009 Jul 27.

Division of Biostatistics, Dan L Duncan Cancer Center, Department of Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA.

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http://dx.doi.org/10.1186/1471-2105-10-232DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2724425PMC
July 2009

Baseline correction for NMR spectroscopic metabolomics data analysis.

BMC Bioinformatics 2008 Jul 29;9:324. Epub 2008 Jul 29.

Department of Applied Science, University of California, Davis, One Shields Avenue, Davis, CA 95616, USA.

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http://dx.doi.org/10.1186/1471-2105-9-324DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2516527PMC
July 2008

Improved identification of metabolites in complex mixtures using HSQC NMR spectroscopy.

Anal Chim Acta 2008 May 16;614(2):127-33. Epub 2008 Mar 16.

Department of Applied Science, University of California, Davis, Davis, CA 95616, USA.

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http://dx.doi.org/10.1016/j.aca.2008.03.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2424270PMC
May 2008