Chenyi Xue

Chenyi Xue

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Chenyi Xue

Chenyi Xue

Publications by authors named "Chenyi Xue"

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Differentiation of Human-Induced Pluripotent Stem Cells to Macrophages for Disease Modeling and Functional Genomics.

Curr Protoc Stem Cell Biol 2019 02 10;48(1):e74. Epub 2018 Dec 10.

Cardiometabolic Genomics Program, Division of Cardiology, Department of Medicine, Columbia University Medical Center, New York, New York.

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http://dx.doi.org/10.1002/cpsc.74DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6431251PMC
February 2019

Tissue-Specific Differential Expression of Novel Genes and Long Intergenic Noncoding RNAs in Humans With Extreme Response to Evoked Endotoxemia.

Circ Genom Precis Med 2018 11;11(11):e001907

Cardiology Division, Department of Medicine, Columbia University Medical Center, New York, NY (C.X., Y.G., J.S., X.Z., Y.W., Y.D.L., H.Z., M.P.R.).

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http://dx.doi.org/10.1161/CIRCGEN.117.001907DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6309423PMC
November 2018

CRISPR/Cas9-Mediated Gene Editing in Human iPSC-Derived Macrophage Reveals Lysosomal Acid Lipase Function in Human Macrophages-Brief Report.

Arterioscler Thromb Vasc Biol 2017 11 7;37(11):2156-2160. Epub 2017 Sep 7.

From the Division of Cardiology, Department of Medicine, Columbia University Medical Center, New York (H.Z., J.S., M.A.H., C.X., R.C.B., M.P.R.); Irving Institute for Clinical and Translational Research, Columbia University, New York (H.J., M.P.R.); Cardiovascular Institute, Perelman School of Medicine (W.L.), Division of Translational Medicine and Human Genetics, Departments of Genetics and Medicine, Perelman School of Medicine (J.T., J.B., M.C.P., D.J.R.), and Metabolic Tracer Resource, Institute for Diabetes, Obesity and Metabolism, Department of Medicine (J.M.), University of Pennsylvania, Philadelphia; and Department of Pathology and Immunology, Washington University in St. Louis, MO (B.R.).

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http://dx.doi.org/10.1161/ATVBAHA.117.310023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5659288PMC
November 2017

Expression of Calgranulin Genes S100A8, S100A9 and S100A12 Is Modulated by n-3 PUFA during Inflammation in Adipose Tissue and Mononuclear Cells.

PLoS One 2017 26;12(1):e0169614. Epub 2017 Jan 26.

Division of Cardiovascular Medicine, and Vanderbilt Translational and Clinical Cardiovascular Research Center (VTRACC), Vanderbilt University Medical Center, Nashville, Tennessee, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0169614PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5268473PMC
August 2017

Distinct functions of PPARγ isoforms in regulating adipocyte plasticity.

Biochem Biophys Res Commun 2016 Dec 3;481(1-2):132-138. Epub 2016 Nov 3.

Department of Pathology and Cell Biology, Naomi Berrie Diabetes Center, Columbia University College of Physicians & Surgeons, New York, NY, 10032, USA. Electronic address:

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http://dx.doi.org/10.1016/j.bbrc.2016.10.152DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5147489PMC
December 2016

Transcriptome-Wide Analysis Reveals Modulation of Human Macrophage Inflammatory Phenotype Through Alternative Splicing.

Arterioscler Thromb Vasc Biol 2016 07 26;36(7):1434-47. Epub 2016 May 26.

From the Renal, Electrolyte, and Hypertension Division, Department of Medicine, Perelman School of Medicine (J.L.), Department of Biostatistics and Epidemiology (Y.H., M.L.), Department of Genetics, Perelman School of Medicine (B.C., K.M., D.J.R.), and Cardiovascular Institute, Department of Medicine, Perelman School of Medicine (M.G., W.L., K.M.), University of Pennsylvania, Philadelphia; Irving Institute for Clinical and Translational Research (M.P.R.) and Division of Cardiology, Department of Medicine (C.X., H.Z., M.P.R.), Columbia University Medical Center, New York, NY; and Department of Mathematics and Statistics, Mount Holyoke College, South Hadley, MA (S.N., A.S.F.).

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http://dx.doi.org/10.1161/ATVBAHA.116.307573DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4919157PMC
July 2016

Genome-wide interrogation reveals hundreds of long intergenic noncoding RNAs that associate with cardiometabolic traits.

Hum Mol Genet 2016 07 10;25(14):3125-3141. Epub 2016 Jun 10.

Department of Medicine, Division of Cardiology, Columbia University Medical Center, New York, NY 10032, USA

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http://dx.doi.org/10.1093/hmg/ddw154DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5181595PMC
July 2016

Common and Rare Genetic Variation in CCR2, CCR5, or CX3CR1 and Risk of Atherosclerotic Coronary Heart Disease and Glucometabolic Traits.

Circ Cardiovasc Genet 2016 Jun 24;9(3):250-8. Epub 2016 Mar 24.

From the Department of Medicine, Hospital of the University of Pennsylvania, Philadelphia (J.R.G.); Cardiovascular Division, Department of Medicine (N.O.S.), Department of Genetics and McDonnell Genome Institute (N.O.S.), Washington University School of Medicine, St. Louis, MO; Department of Biostatistics and Epidemiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia (W.Z., C.X., D.S.); Department of Cardiovascular Medicine, The Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom (M.F., H.W.); Division of Cardiology, University of Ottawa Heart Institute, Ottawa, Ontario, Canada (R.M.); Medizinische Klinik II, University of Lübeck, Lübeck, Germany (J.E.); William Harvey Research Institute, Barts & The London School of Medicine and Dentistry, Queen Mary University London, London, United Kingdom (P.D.); Deutsches Herzzentrum München, Technische Universität München, DZHK, Munich Heart Alliance, München, Germany (H.S.); Department of Cardiovascular Sciences, University of Leicester & NIHR Leicester Cardiovascular Biomedical Research Unit, Glenfield Hospital, Leicester, United Kingdom (N.J.S.); Center for Human Genetic Research, Cardiovascular Research Center, Massachusetts General Hospital, Boston (S.K.); Department of Medicine, Harvard Medical School, Boston, MA (S.K.); Program in Medical and Population Genetics, Broad Institute, Cambridge, MA (S.K.); and Department of Medicine, Columbia University, New York, NY (M.P.R.).

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http://dx.doi.org/10.1161/CIRCGENETICS.115.001374DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5015681PMC
June 2016

Adipose tissue RNASeq reveals novel gene-nutrient interactions following n-3 PUFA supplementation and evoked inflammation in humans.

J Nutr Biochem 2016 Apr 11;30:126-32. Epub 2016 Jan 11.

Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, USA.

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http://dx.doi.org/10.1016/j.jnutbio.2015.12.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4808243PMC
April 2016

NuSAP governs chromosome oscillation by facilitating the Kid-generated polar ejection force.

Nat Commun 2016 Feb 3;7:10597. Epub 2016 Feb 3.

Department of Biological Sciences, Faculty of Science, National University of Singapore, 14 Science Drive 4, Singapore 117543, Republic of Singapore.

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http://dx.doi.org/10.1038/ncomms10597DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4742958PMC
February 2016

The long noncoding RNA landscape in hypoxic and inflammatory renal epithelial injury.

Am J Physiol Renal Physiol 2015 Dec 23;309(11):F901-13. Epub 2015 Sep 23.

Cardiovascular Institute, University of Pennsylvania Perelman School of Medicine, Philadelphia, Pennsylvania;

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http://dx.doi.org/10.1152/ajprenal.00290.2015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4669357PMC
December 2015

Functional analysis and transcriptomic profiling of iPSC-derived macrophages and their application in modeling Mendelian disease.

Circ Res 2015 Jun 22;117(1):17-28. Epub 2015 Apr 22.

From the Cardiovascular Institute (H.Z., C.X., R.S., K.B., C.C.H., W.L., A.R., J.T.-M., E.E.P., E.E.M., D.J.R., M.P.R.), and Department of Biostatistics and Epidemiology (M.L.), Perelman School of Medicine, Institute for Translational Medicine and Therapeutics, Institute for Diabetes, Obesity, and Metabolism (A.R., M.C., E.E.P., D.J.R.), Department of Medicine, Metabolic Tracer Resource, Institute for Diabetes, Obesity, and Metabolism (J.S.M.), Institute for Regenerative Medicine (Y.L., R.Y., W.Y., E.E.M.), Department of Biology, Perelman School of Medicine and School of Arts and Science (S.J.G., B.D.G.), PENN Genome Frontiers Institute (S.J.G., B.D.G.), Department of Pediatrics, Perelman School of Medicine (S.T.C.), Department of Cell and Developmental Biology, Perelman School of Medicine (E.E.M.), and Department of Biostatistics and Epidemiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia; and Division of Hematology, The Children's Hospital of Philadelphia, PA (D.V., S.T.C.).

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http://dx.doi.org/10.1161/CIRCRESAHA.117.305860DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4565503PMC
June 2015

Loss-of-function mutations in APOC3, triglycerides, and coronary disease.

N Engl J Med 2014 Jul 18;371(1):22-31. Epub 2014 Jun 18.

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http://dx.doi.org/10.1056/NEJMoa1307095DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4180269PMC
July 2014

Tissue-specific RNA-Seq in human evoked inflammation identifies blood and adipose LincRNA signatures of cardiometabolic diseases.

Arterioscler Thromb Vasc Biol 2014 Apr 6;34(4):902-12. Epub 2014 Feb 6.

From the Departments of Biostatistics and Epidemiology and Biology, Cardiovascular Institute, Perelman School of Medicine and School of Arts and Science at the University of Pennsylvania, Philadelphia.

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http://dx.doi.org/10.1161/ATVBAHA.113.303123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3966947PMC
April 2014

Evaluating the impact of sequencing depth on transcriptome profiling in human adipose.

PLoS One 2013 24;8(6):e66883. Epub 2013 Jun 24.

Department of Biostatistics and Epidemiology, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0066883PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3691247PMC
February 2014

PennSeq: accurate isoform-specific gene expression quantification in RNA-Seq by modeling non-uniform read distribution.

Nucleic Acids Res 2014 Feb 20;42(3):e20. Epub 2013 Dec 20.

Department of Biostatistics and Epidemiology, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA and Cardiovascular Institute, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA.

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http://dx.doi.org/10.1093/nar/gkt1304DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3919567PMC
February 2014

Whole-exome sequencing identifies rare and low-frequency coding variants associated with LDL cholesterol.

Authors:
Leslie A Lange Youna Hu He Zhang Chenyi Xue Ellen M Schmidt Zheng-Zheng Tang Chris Bizon Ethan M Lange Joshua D Smith Emily H Turner Goo Jun Hyun Min Kang Gina Peloso Paul Auer Kuo-Ping Li Jason Flannick Ji Zhang Christian Fuchsberger Kyle Gaulton Cecilia Lindgren Adam Locke Alisa Manning Xueling Sim Manuel A Rivas Oddgeir L Holmen Omri Gottesman Yingchang Lu Douglas Ruderfer Eli A Stahl Qing Duan Yun Li Peter Durda Shuo Jiao Aaron Isaacs Albert Hofman Joshua C Bis Adolfo Correa Michael E Griswold Johanna Jakobsdottir Albert V Smith Pamela J Schreiner Mary F Feitosa Qunyuan Zhang Jennifer E Huffman Jacy Crosby Christina L Wassel Ron Do Nora Franceschini Lisa W Martin Jennifer G Robinson Themistocles L Assimes David R Crosslin Elisabeth A Rosenthal Michael Tsai Mark J Rieder Deborah N Farlow Aaron R Folsom Thomas Lumley Ervin R Fox Christopher S Carlson Ulrike Peters Rebecca D Jackson Cornelia M van Duijn André G Uitterlinden Daniel Levy Jerome I Rotter Herman A Taylor Vilmundur Gudnason David S Siscovick Myriam Fornage Ingrid B Borecki Caroline Hayward Igor Rudan Y Eugene Chen Erwin P Bottinger Ruth J F Loos Pål Sætrom Kristian Hveem Michael Boehnke Leif Groop Mark McCarthy Thomas Meitinger Christie M Ballantyne Stacey B Gabriel Christopher J O'Donnell Wendy S Post Kari E North Alexander P Reiner Eric Boerwinkle Bruce M Psaty David Altshuler Sekar Kathiresan Dan-Yu Lin Gail P Jarvik L Adrienne Cupples Charles Kooperberg James G Wilson Deborah A Nickerson Goncalo R Abecasis Stephen S Rich Russell P Tracy Cristen J Willer

Am J Hum Genet 2014 Feb;94(2):233-45

Division of Cardiovascular Medicine, Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA; Department of Human Genetics, University of Michigan, Ann Arbor, MI 48109, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2014.01.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928660PMC
February 2014

The activity and expression of microRNAs in prostate cancers.

Mol Biosyst 2010 Dec 19;6(12):2561-72. Epub 2010 Oct 19.

State Key Laboratory of Genetic Engineering, Institute of Genetics, School of Life Sciences, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1039/c0mb00100gDOI Listing
December 2010

Racial differences in MLH1 and MSH2 mutation: an analysis of yellow race and white race based on the InSiGHT database.

J Bioinform Comput Biol 2010 Dec;8 Suppl 1:111-25

Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, P R China.

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December 2010