Lingyun Song

Lingyun Song

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Lingyun Song

Publications by authors named "Lingyun Song"

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55Publications

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Effects of long term antiprogestine mifepristone (RU486) exposure on sexually dimorphic lncRNA expression and gonadal masculinization in Nile tilapia (Oreochromis niloticus).

Aquat Toxicol 2019 Oct 28;215:105289. Epub 2019 Aug 28.

Key Laboratory of Freshwater Fish Reproduction and Development (Ministry of Education), Key Laboratory of Aquatic Science of Chongqing, School of Life Sciences, Southwest University, Chongqing, 400715, China. Electronic address:

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http://dx.doi.org/10.1016/j.aquatox.2019.105289DOI Listing
October 2019

Repair of partial atrioventricular canal defect in adult patients: two-year follow-up outcomes of a retrospective study.

J Cardiothorac Surg 2019 Jun 11;14(1):106. Epub 2019 Jun 11.

Department of Cardiovascular Surgery, West China Hospital, Sichuan University, No. 37 GuoXue Xiang, Chengdu, Sichuan, 610041, People's Republic of China.

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http://dx.doi.org/10.1186/s13019-019-0931-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6560765PMC
June 2019

Dislocation of an Amplatzer device occluder 12 years following transcatheter insertion for a perimembranous ventricular septal defect.

Authors:
Lingyun Song Qi An

J Card Surg 2018 Dec 10;33(12):867-869. Epub 2018 Dec 10.

Department of Cardiovascular Surgery, West China Hospital, Sichuan University, Chengdu, Sichuan, People's Republic of China.

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https://onlinelibrary.wiley.com/doi/abs/10.1111/jocs.13956
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http://dx.doi.org/10.1111/jocs.13956DOI Listing
December 2018

Human cardiac -regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants.

Genome Res 2018 10 23;28(10):1577-1588. Epub 2018 Aug 23.

McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1101/gr.234633.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6169896PMC
October 2018

Nuclear progestin receptor (Pgr) knockouts resulted in subfertility in male tilapia (Oreochromis niloticus).

J Steroid Biochem Mol Biol 2018 09 27;182:62-71. Epub 2018 Apr 27.

Key Laboratory of Freshwater Fish Reproduction and Development (Ministry of Education), Key Laboratory of Aquatic Science of Chongqing, School of Life Science, Southwest University, Chongqing 400715, PR China. Electronic address:

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http://dx.doi.org/10.1016/j.jsbmb.2018.04.011DOI Listing
September 2018

Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids.

Cell Syst 2018 08 18;7(2):146-160.e7. Epub 2018 Jul 18.

University Program in Genetics and Genomics, Duke University, Durham, NC 27708, USA; Center for Genomic and Computational Biology, Duke University, Durham, NC 27708, USA; Computational Biology and Bioinformatics Graduate Program, Duke University, Durham, NC 27708, USA; Department of Biostatistics and Bioinformatics, Duke University Medical Center, Durham, NC 27710, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA; Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2018.06.007DOI Listing
August 2018

Microbiota regulate intestinal epithelial gene expression by suppressing the transcription factor Hepatocyte nuclear factor 4 alpha.

Genome Res 2017 07 6;27(7):1195-1206. Epub 2017 Apr 6.

Department of Molecular Genetics and Microbiology, Center for the Genomics of Microbial Systems, Duke University, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1101/gr.220111.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5495071PMC
July 2017

Genome-wide identification of regulatory elements in Sertoli cells.

Development 2017 02 13;144(4):720-730. Epub 2017 Jan 13.

Department of Cell Biology, Duke University, Durham, NC 27710, USA

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http://dx.doi.org/10.1242/dev.142554DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5312035PMC
February 2017

Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome.

Cell 2016 Aug;166(5):1269-1281.e19

Center for Genomic & Computational Biology, Duke University, Durham, NC 27708, USA; Department of Biostatistics & Bioinformatics, Duke University, Durham, NC 27708, USA. Electronic address:

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5046229PMC
http://dx.doi.org/10.1016/j.cell.2016.07.049DOI Listing
August 2016

Chromatin accessibility mapping identifies mediators of basal transcription and retinoid-induced repression of OTX2 in medulloblastoma.

PLoS One 2014 8;9(9):e107156. Epub 2014 Sep 8.

Department of Pathology, The Pediatric Brain Tumor Foundation Institute, and The Preston Robert Tisch Brain Tumor Center at Duke, Duke University Medical Center, Durham, North Carolina, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0107156PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4157845PMC
January 2016

Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators.

Genome Res 2015 Aug 29;25(8):1158-69. Epub 2015 May 29.

Department of Biomedical Engineering, Duke University, Durham, North Carolina 27708, USA; Center for Genomic and Computational Biology, Duke University, Durham, North Carolina 27708, USA; Department of Orthopaedic Surgery, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://genome.cshlp.org/lookup/doi/10.1101/gr.179044.114
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http://dx.doi.org/10.1101/gr.179044.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4510000PMC
August 2015

Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation.

PLoS Genet 2015 Jan 8;11(1):e1004885. Epub 2015 Jan 8.

Environmental Genomics Group, Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, North Carolina, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1004885DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4287438PMC
January 2015

Open chromatin mapping identifies transcriptional networks regulating human epididymis epithelial function.

Mol Hum Reprod 2014 Dec 1;20(12):1198-207. Epub 2014 Sep 1.

Human Molecular Genetics Program, Lurie Children's Research Center, Chicago, IL, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL, USA

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http://dx.doi.org/10.1093/molehr/gau075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4235575PMC
December 2014

Notch signaling genes: myogenic DNA hypomethylation and 5-hydroxymethylcytosine.

Epigenetics 2014 Jun 26;9(6):842-50. Epub 2014 Mar 26.

Program in Human Genetics; Tulane Cancer Center; Center for Bioinformatics and Genomics; Tulane Health Sciences Center; New Orleans, LA USA.

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http://dx.doi.org/10.4161/epi.28597DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4065182PMC
June 2014

Epigenomic comparison reveals activation of "seed" enhancers during transition from naive to primed pluripotency.

Cell Stem Cell 2014 Jun;14(6):854-63

Department of Genetics and Genome Sciences, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA; Case Comprehensive Cancer Center, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA; National Center for Regenerative Medicine, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA. Electronic address:

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http://www.cell.com/cell-stem-cell/pdf/S1934-5909(14)00192-1
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http://www.cell.com/cms/attachment/2024866441/2044539278/mmc
Web Search
http://linkinghub.elsevier.com/retrieve/pii/S193459091400192
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http://dx.doi.org/10.1016/j.stem.2014.05.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4149284PMC
June 2014

A genome-wide analysis of open chromatin in human epididymis epithelial cells reveals candidate regulatory elements for genes coordinating epididymal function.

Biol Reprod 2013 Oct 31;89(4):104. Epub 2013 Oct 31.

Human Molecular Genetics Program, Lurie Children's Research Center, and Department of Pediatrics, Northwestern University Feinberg School of Medicine Chicago, Illinois.

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http://dx.doi.org/10.1095/biolreprod.113.110403DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4076396PMC
October 2013

DNA methylation and differentiation: HOX genes in muscle cells.

Epigenetics Chromatin 2013 Aug 2;6(1):25. Epub 2013 Aug 2.

Hayward Human Genetics Program and Tulane Cancer Center, Tulane Health Sciences Center, New Orleans LA, USA.

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http://dx.doi.org/10.1186/1756-8935-6-25DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3750649PMC
August 2013

DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types.

Genome Res 2013 Jul 8;23(7):1118-29. Epub 2013 May 8.

Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA.

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http://dx.doi.org/10.1101/gr.150482.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3698505PMC
July 2013

Site-specific silencing of regulatory elements as a mechanism of X inactivation.

Cell 2012 Nov;151(5):951-63

Department of Genetics, the Carolina Center for Genome Sciences, and the Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA.

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http://dx.doi.org/10.1016/j.cell.2012.10.037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3511858PMC
November 2012

Cell-type specific and combinatorial usage of diverse transcription factors revealed by genome-wide binding studies in multiple human cells.

Genome Res 2012 Jan 16;22(1):9-24. Epub 2011 Nov 16.

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, USA.

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http://dx.doi.org/10.1101/gr.127597.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3246210PMC
January 2012

Heritable individual-specific and allele-specific chromatin signatures in humans.

Science 2010 Apr 18;328(5975):235-9. Epub 2010 Mar 18.

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

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http://dx.doi.org/10.1126/science.1184655DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2929018PMC
April 2010

DNase-seq: a high-resolution technique for mapping active gene regulatory elements across the genome from mammalian cells.

Cold Spring Harb Protoc 2010 Feb;2010(2):pdb.prot5384

Institute for Genome Sciences & Policy and Department of Pediatrics, Duke University, Durham, NC 27708, USA.

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http://dx.doi.org/10.1101/pdb.prot5384DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3627383PMC
February 2010

DNaseI hypersensitivity at gene-poor, FSH dystrophy-linked 4q35.2.

Nucleic Acids Res 2009 Dec;37(22):7381-93

Human Genetics Program and Department of Biochemistry and Tulane Cancer Center, Tulane Medical School, New Orleans, LA 70112, USA.

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http://dx.doi.org/10.1093/nar/gkp833DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2794184PMC
December 2009

19F-NMR reveals metal and operator-induced allostery in MerR.

J Mol Biol 2007 Aug 10;371(1):79-92. Epub 2007 May 10.

Department of Microbiology, University of Georgia, Athens, GA 30602, USA.

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http://dx.doi.org/10.1016/j.jmb.2007.04.085DOI Listing
August 2007

Hg(II) sequestration and protection by the MerR metal-binding domain (MBD).

Microbiology 2006 Mar;152(Pt 3):709-19

Department of Microbiology and the Center for Metalloenzyme Studies, University of Georgia, Athens, GA 30602-2605, USA.

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http://dx.doi.org/10.1099/mic.0.28474-0DOI Listing
March 2006

Engineered single-chain, antiparallel, coiled coil mimics the MerR metal binding site.

J Bacteriol 2004 Mar;186(6):1861-8

Department of Microbiology and Center for Metalloenzyme Studies, University of Georgia, Athens, Georgia 30602, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC355954PMC
http://dx.doi.org/10.1128/jb.186.6.1861-1868.2004DOI Listing
March 2004