Jinchuan Xing

Jinchuan Xing

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Jinchuan Xing

Publications by authors named "Jinchuan Xing"

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Evaluating nanopore sequencing data processing pipelines for structural variation identification.

Genome Biol 2019 11 14;20(1):237. Epub 2019 Nov 14.

Department of Genetics, Rutgers, the State University of New Jersey, Piscataway, NJ, 08854, USA.

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http://dx.doi.org/10.1186/s13059-019-1858-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6857234PMC
November 2019

Pedigree-based estimation of human mobile element retrotransposition rates.

Genome Res 2019 10;29(10):1567-1577

Department of Human Genetics, University of Utah School of Medicine, Salt Lake City, Utah 84112, USA.

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http://dx.doi.org/10.1101/gr.247965.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6771411PMC
October 2019

Can-SINE dynamics in the giant panda and three other Caniformia genomes.

Mob DNA 2018 10;9:32. Epub 2018 Nov 10.

1Key Laboratory of Bio-resources and Eco-environment, Ministry of Education, College of Life and Sciences, University of Sichuan, Chengdu, China.

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https://mobilednajournal.biomedcentral.com/articles/10.1186/
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http://dx.doi.org/10.1186/s13100-018-0137-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6230240PMC
November 2018

Ancient hybridization and admixture in macaques (genus Macaca) inferred from whole genome sequences.

Mol Phylogenet Evol 2018 10 31;127:376-386. Epub 2018 Mar 31.

Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, People's Republic of China. Electronic address:

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http://dx.doi.org/10.1016/j.ympev.2018.03.038DOI Listing
October 2018

PipelineDog: a simple and flexible graphic pipeline construction and maintenance tool.

Bioinformatics 2018 05;34(9):1603-1605

Department of Genetics, Human Genetics Institute of New Jersey, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.

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http://dx.doi.org/10.1093/bioinformatics/btx759DOI Listing
May 2018

Degree of Tissue Differentiation Dictates Susceptibility to BRAF-Driven Colorectal Cancer.

Cell Rep 2017 12;21(13):3833-3845

Department of Genetics, Rutgers University, Human Genetics Institute of New Jersey (HGINJ), 145 Bevier Road, Piscataway Township, NJ 08854, USA; Rutgers Cancer Institute of New Jersey (CINJ), 195 Little Albany Street, New Brunswick, NJ 08903, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S22111247173178
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http://dx.doi.org/10.1016/j.celrep.2017.11.104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5747303PMC
December 2017

Library Construction for High-Throughput Mobile Element Identification and Genotyping.

Methods Mol Biol 2017 ;1589:1-15

Department of Genetics, Rutgers, the State University of New Jersey, Piscataway, NJ, USA.

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http://dx.doi.org/10.1007/7651_2015_265DOI Listing
October 2017

Identification and characterization of Aurora kinase B and C variants associated with maternal aneuploidy.

Mol Hum Reprod 2017 06;23(6):406-416

Department of Genetics, Rutgers, The State University of New Jersey, 145 Bevier Rd. Piscataway, NJ 08854, USA.

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http://dx.doi.org/10.1093/molehr/gax018DOI Listing
June 2017

Extremely low-coverage whole genome sequencing in South Asians captures population genomics information.

BMC Genomics 2017 05 22;18(1):396. Epub 2017 May 22.

Department of Genetics, Human Genetics Institute of New Jersey, Rutgers, The State University of New Jersey, Piscataway, NJ, 08854, USA.

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http://dx.doi.org/10.1186/s12864-017-3767-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5440948PMC
May 2017

Accounting for Protein Subcellular Localization: A Compartmental Map of the Rat Liver Proteome.

Mol Cell Proteomics 2017 02 6;16(2):194-212. Epub 2016 Dec 6.

¶Center for Advanced Biotechnology and Medicine, Rutgers Biomedical and Health Sciences, 679 Hoes Lane West, Piscataway, New Jersey 08854;

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http://dx.doi.org/10.1074/mcp.M116.064527DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5294208PMC
February 2017

Analysis of large-scale whole exome sequencing data to determine the prevalence of genetically-distinct forms of neuronal ceroid lipofuscinosis.

Gene 2016 Nov 20;593(2):284-91. Epub 2016 Aug 20.

Department of Genetics, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA; Human Genetics Institute of New Jersey, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2016.08.031DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5505770PMC
November 2016

A YY1-dependent increase in aerobic metabolism is indispensable for intestinal organogenesis.

Development 2016 10;143(20):3711-3722

Rutgers University, Department of Genetics, Human Genetics Institute of New Jersey (HGINJ), 145 Bevier Road, Piscataway Township, NJ 08854, USA

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http://dx.doi.org/10.1242/dev.137992DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5087649PMC
October 2016

A Rare Variant in Segregates with 7 Bipolar I Disorder Cases in a Large Pedigree.

Mol Neuropsychiatry 2016 Oct 3;2(3):145-150. Epub 2016 Aug 3.

Department of Psychiatry, University of California, San Francisco, Calif., USA.

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http://dx.doi.org/10.1159/000448041DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5109989PMC
October 2016

Identification of polymorphic SVA retrotransposons using a mobile element scanning method for SVA (ME-Scan-SVA).

Mob DNA 2016 30;7:15. Epub 2016 Jul 30.

Department of Genetics, The State University of New Jersey, Piscataway, 08854 NJ USA ; Human Genetic Institute of New Jersey, Rutgers, The State University of New Jersey, Piscataway, 08854 NJ USA.

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http://dx.doi.org/10.1186/s13100-016-0072-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4967303PMC
August 2016

piRNAs derived from ancient viral processed pseudogenes as transgenerational sequence-specific immune memory in mammals.

RNA 2015 Oct 17;21(10):1691-703. Epub 2015 Aug 17.

Department of Viral Oncology, Institute for Virus Research, Kyoto University, Kyoto 606-8507, Japan Department of Tumor Viruses, Graduate School of Medicine, Kyoto University, Kyoto 606-8507, Japan Department of Mammalian Regulatory Network, Graduate School of Biostudies, Kyoto University, Kyoto 606-8507, Japan.

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http://dx.doi.org/10.1261/rna.052092.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4574747PMC
October 2015

Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis.

Genome Biol Evol 2015 May 25;7(6):1664-75. Epub 2015 May 25.

Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University Department of Biological Sciences, Texas Tech University

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http://gbe.oxfordjournals.org/content/early/2015/05/25/gbe.e
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http://gbe.oxfordjournals.org/cgi/doi/10.1093/gbe/evv099
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http://dx.doi.org/10.1093/gbe/evv099DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4494050PMC
May 2015

Shared and unique signals of high-altitude adaptation in geographically distinct Tibetan populations.

PLoS One 2014 18;9(3):e88252. Epub 2014 Mar 18.

Research Center for High-Altitude Medicine, Qinghai University Medical School, Xining, Qinghai, People's Republic of China.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0088252PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3958363PMC
December 2014

A genetic mechanism for Tibetan high-altitude adaptation.

Nat Genet 2014 Sep 17;46(9):951-6. Epub 2014 Aug 17.

1] Department of Medicine, University of Utah School of Medicine and George E. Wahlin Veterans Administration Medical Center, Salt Lake City, Utah, USA. [2] Eccles Institute of Human Genetics, University of Utah School of Medicine, Salt Lake City, Utah, USA. [3].

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http://dx.doi.org/10.1038/ng.3067DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4473257PMC
September 2014

Variation in piRNA and transposable element content in strains of Drosophila melanogaster.

Genome Biol Evol 2014 Sep 29;6(10):2786-98. Epub 2014 Sep 29.

Department of Genetics, Rutgers University BioMaPS Institute for Quantitative Biology, Rutgers University

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https://academic.oup.com/gbe/article-lookup/doi/10.1093/gbe/
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http://dx.doi.org/10.1093/gbe/evu217DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4224344PMC
September 2014

A comprehensive analysis of piRNAs from adult human testis and their relationship with genes and mobile elements.

BMC Genomics 2014 Jul 1;15:545. Epub 2014 Jul 1.

Department of Genetics, The State University of New Jersey, Piscataway, NJ 08854, USA.

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http://dx.doi.org/10.1186/1471-2164-15-545DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4094622PMC
July 2014

Whole-genome sequencing of tibetan macaque (Macaca Thibetana) provides new insight into the macaque evolutionary history.

Mol Biol Evol 2014 Jun 18;31(6):1475-89. Epub 2014 Mar 18.

Key Laboratory of Bioresources and Ecoenvironment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu, People's Republic of China

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http://dx.doi.org/10.1093/molbev/msu104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4032132PMC
June 2014

Genomic analysis of natural selection and phenotypic variation in high-altitude mongolians.

PLoS Genet 2013 18;9(7):e1003634. Epub 2013 Jul 18.

Eccles Institute of Human Genetics, University of Utah School of Medicine, Salt Lake City, Utah, USA.

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http://dx.doi.org/10.1371/journal.pgen.1003634DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715426PMC
January 2014

A primer for disease gene prioritization using next-generation sequencing data.

Genomics Inform 2013 Dec 31;11(4):191-9. Epub 2013 Dec 31.

Department of Genetics, The State University of New Jersey, Piscataway, NJ 08854, USA. ; Human Genetics Institute of New Jersey, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.

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http://dx.doi.org/10.5808/GI.2013.11.4.191DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897846PMC
December 2013

Mobile element scanning (ME-Scan) identifies thousands of novel Alu insertions in diverse human populations.

Genome Res 2013 Jul 18;23(7):1170-81. Epub 2013 Apr 18.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, Utah 84112, USA.

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http://dx.doi.org/10.1101/gr.148973.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3698510PMC
July 2013

Mobile element biology: new possibilities with high-throughput sequencing.

Trends Genet 2013 May 9;29(5):280-9. Epub 2013 Jan 9.

Department of Genetics, Human Genetic Institute of New Jersey, Rutgers, State University of New Jersey, Piscataway, NJ 08854, USA.

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http://dx.doi.org/10.1016/j.tig.2012.12.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3938198PMC
May 2013

Effect of interleukin-6 polymorphism on risk of preterm birth within population strata: a meta-analysis.

BMC Genet 2013 Apr 25;14:30. Epub 2013 Apr 25.

Department of Human Genetics, University of Utah School of Medicine, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1186/1471-2156-14-30DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3639799PMC
April 2013

Metabolic insight into mechanisms of high-altitude adaptation in Tibetans.

Mol Genet Metab 2012 Jun 17;106(2):244-7. Epub 2012 Mar 17.

Research Center for High-Altitude Medicine, Qinghai University Medical School, Xining, Qinghai 810001, People's Republic of China.

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http://dx.doi.org/10.1016/j.ymgme.2012.03.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3437309PMC
June 2012

Genetic analysis of ancestry, admixture and selection in Bolivian and Totonac populations of the New World.

BMC Genet 2012 May 20;13:39. Epub 2012 May 20.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, 15 N 2030 E Rm 2100, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1186/1471-2156-13-39DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3432609PMC
May 2012

A probabilistic disease-gene finder for personal genomes.

Genome Res 2011 Sep 23;21(9):1529-42. Epub 2011 Jun 23.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah and School of Medicine, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1101/gr.123158.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3166837PMC
September 2011

Genetic diversity in India and the inference of Eurasian population expansion.

Genome Biol 2010 24;11(11):R113. Epub 2010 Nov 24.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, 15 North 2030 East, Salt Lake City, UT 84112, USA.

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http://jorde-lab.genetics.utah.edu/pub/Xing_ENCODE/Supplemen
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http://genomebiology.com/2010/11/11/R113
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http://dx.doi.org/10.1186/gb-2010-11-11-r113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3156952PMC
June 2011

Genetic evidence for high-altitude adaptation in Tibet.

Science 2010 Jul 13;329(5987):72-5. Epub 2010 May 13.

Eccles Institute of Human Genetics, University of Utah School of Medicine, Salt Lake City, UT 84112, USA.

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http://jorde-lab.genetics.utah.edu/pub/Simonson_HAA/Simonson
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http://www.sciencemag.org/cgi/doi/10.1126/science.1189406
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http://dx.doi.org/10.1126/science.1189406DOI Listing
July 2010

Mobile element scanning (ME-Scan) by targeted high-throughput sequencing.

BMC Genomics 2010 Jun 30;11:410. Epub 2010 Jun 30.

Dept. of Human Genetics, University of Utah Health Sciences Center, Salt Lake City, Utah 84112, USA.

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http://dx.doi.org/10.1186/1471-2164-11-410DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2996938PMC
June 2010

Limited distribution of a cardiomyopathy-associated variant in India.

Ann Hum Genet 2010 Mar 18;74(2):184-8. Epub 2010 Feb 18.

Department of Human Genetics, University of Utah, Salt Lake City, Utah 84112, USA.

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http://dx.doi.org/10.1111/j.1469-1809.2010.00561.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2901538PMC
March 2010

Mobile elements reveal small population size in the ancient ancestors of Homo sapiens.

Proc Natl Acad Sci U S A 2010 Feb 19;107(5):2147-52. Epub 2010 Jan 19.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1073/pnas.0909000107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2836654PMC
February 2010

Phylogeny of the macaques (Cercopithecidae: Macaca) based on Alu elements.

Gene 2009 Dec 2;448(2):242-9. Epub 2009 Jun 2.

Department of Biological Sciences, Louisiana State University, 202 Life Sciences Building, Baton Rouge, Louisiana 70803, USA.

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http://dx.doi.org/10.1016/j.gene.2009.05.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2783879PMC
December 2009

5'-Transducing SVA retrotransposon groups spread efficiently throughout the human genome.

Genome Res 2009 Nov 3;19(11):1992-2008. Epub 2009 Aug 3.

Fachgebiet PR2/Retroelemente, Paul-Ehrlich-Institut, D-63225 Langen, Germany.

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http://dx.doi.org/10.1101/gr.093435.109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2775593PMC
November 2009

Alu repeats increase local recombination rates.

BMC Genomics 2009 Nov 16;10:530. Epub 2009 Nov 16.

Dept. of Human Genetics, University of Utah Health Sciences Center, Salt Lake City, Utah 84112, USA.

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http://dx.doi.org/10.1186/1471-2164-10-530DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2785838PMC
November 2009

Mobile elements create structural variation: analysis of a complete human genome.

Genome Res 2009 Sep 13;19(9):1516-26. Epub 2009 May 13.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, Utah 84109, USA.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.091827.109
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http://dx.doi.org/10.1101/gr.091827.109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2752133PMC
September 2009

Estimating the age of retrotransposon subfamilies using maximum likelihood.

Genomics 2009 Jul 18;94(1):78-82. Epub 2009 Apr 18.

Division of Medical Genetics, University of Washington, BOX 357720, Seattle, WA 98195, USA.

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http://dx.doi.org/10.1016/j.ygeno.2009.04.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2703446PMC
July 2009

Fine-scaled human genetic structure revealed by SNP microarrays.

Genome Res 2009 May;19(5):815-25

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1101/gr.085589.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675970PMC
May 2009

High fidelity of whole-genome amplified DNA on high-density single nucleotide polymorphism arrays.

Genomics 2008 Dec 27;92(6):452-6. Epub 2008 Sep 27.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT, 84112, USA.

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http://dx.doi.org/10.1016/j.ygeno.2008.08.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2659594PMC
December 2008

HapMap tagSNP transferability in multiple populations: general guidelines.

Genomics 2008 Jul 14;92(1):41-51. Epub 2008 May 14.

Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1016/j.ygeno.2008.03.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2471876PMC
July 2008

Mobile DNA elements in primate and human evolution.

Am J Phys Anthropol 2007 ;Suppl 45:2-19

Department of Human Genetics, University of Utah Health Sciences Center, Salt Lake City, UT 84112, USA.

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http://dx.doi.org/10.1002/ajpa.20722DOI Listing
January 2008

A SINE-based dichotomous key for primate identification.

Gene 2007 Apr 30;390(1-2):39-51. Epub 2006 Aug 30.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, United States.

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http://dx.doi.org/10.1016/j.gene.2006.08.015DOI Listing
April 2007

Evolutionary and biomedical insights from the rhesus macaque genome.

Authors:
Richard A Gibbs Jeffrey Rogers Michael G Katze Roger Bumgarner George M Weinstock Elaine R Mardis Karin A Remington Robert L Strausberg J Craig Venter Richard K Wilson Mark A Batzer Carlos D Bustamante Evan E Eichler Matthew W Hahn Ross C Hardison Kateryna D Makova Webb Miller Aleksandar Milosavljevic Robert E Palermo Adam Siepel James M Sikela Tony Attaway Stephanie Bell Kelly E Bernard Christian J Buhay Mimi N Chandrabose Marvin Dao Clay Davis Kimberly D Delehaunty Yan Ding Huyen H Dinh Shannon Dugan-Rocha Lucinda A Fulton Ramatu Ayiesha Gabisi Toni T Garner Jennifer Godfrey Alicia C Hawes Judith Hernandez Sandra Hines Michael Holder Jennifer Hume Shalini N Jhangiani Vandita Joshi Ziad Mohid Khan Ewen F Kirkness Andrew Cree R Gerald Fowler Sandra Lee Lora R Lewis Zhangwan Li Yih-Shin Liu Stephanie M Moore Donna Muzny Lynne V Nazareth Dinh Ngoc Ngo Geoffrey O Okwuonu Grace Pai David Parker Heidie A Paul Cynthia Pfannkoch Craig S Pohl Yu-Hui Rogers San Juana Ruiz Aniko Sabo Jireh Santibanez Brian W Schneider Scott M Smith Erica Sodergren Amanda F Svatek Teresa R Utterback Selina Vattathil Wesley Warren Courtney Sherell White Asif T Chinwalla Yucheng Feng Aaron L Halpern Ladeana W Hillier Xiaoqiu Huang Pat Minx Joanne O Nelson Kymberlie H Pepin Xiang Qin Granger G Sutton Eli Venter Brian P Walenz John W Wallis Kim C Worley Shiaw-Pyng Yang Steven M Jones Marco A Marra Mariano Rocchi Jacqueline E Schein Robert Baertsch Laura Clarke Miklós Csürös Jarret Glasscock R Alan Harris Paul Havlak Andrew R Jackson Huaiyang Jiang Yue Liu David N Messina Yufeng Shen Henry Xing-Zhi Song Todd Wylie Lan Zhang Ewan Birney Kyudong Han Miriam K Konkel Jungnam Lee Arian F A Smit Brygg Ullmer Hui Wang Jinchuan Xing Richard Burhans Ze Cheng John E Karro Jian Ma Brian Raney Xinwei She Michael J Cox Jeffery P Demuth Laura J Dumas Sang-Gook Han Janet Hopkins Anis Karimpour-Fard Young H Kim Jonathan R Pollack Tomas Vinar Charles Addo-Quaye Jeremiah Degenhardt Alexandra Denby Melissa J Hubisz Amit Indap Carolin Kosiol Bruce T Lahn Heather A Lawson Alison Marklein Rasmus Nielsen Eric J Vallender Andrew G Clark Betsy Ferguson Ryan D Hernandez Kashif Hirani Hildegard Kehrer-Sawatzki Jessica Kolb Shobha Patil Ling-Ling Pu Yanru Ren David Glenn Smith David A Wheeler Ian Schenck Edward V Ball Rui Chen David N Cooper Belinda Giardine Fan Hsu W James Kent Arthur Lesk David L Nelson William E O'brien Kay Prüfer Peter D Stenson James C Wallace Hui Ke Xiao-Ming Liu Peng Wang Andy Peng Xiang Fan Yang Galt P Barber David Haussler Donna Karolchik Andy D Kern Robert M Kuhn Kayla E Smith Ann S Zwieg

Science 2007 Apr;316(5822):222-34

Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1126/science.1139247DOI Listing
April 2007

Mobile DNA in Old World monkeys: a glimpse through the rhesus macaque genome.

Science 2007 Apr;316(5822):238-40

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multi-Scale Systems, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1126/science.1139462DOI Listing
April 2007

A mobile element-based evolutionary history of guenons (tribe Cercopithecini).

BMC Biol 2007 Jan 31;5. Epub 2007 Jan 31.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multi-scale Systems, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1186/1741-7007-5-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1797000PMC
January 2007

SINEs of a nearly perfect character.

Syst Biol 2006 Dec;55(6):928-35

Department of Biology, West Virginia University, PO Box 6057, Morgantown, West Virginia 26506, USA.

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http://dx.doi.org/10.1080/10635150600865419DOI Listing
December 2006

Emergence of primate genes by retrotransposon-mediated sequence transduction.

Proc Natl Acad Sci U S A 2006 Nov 13;103(47):17608-13. Epub 2006 Nov 13.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1073/pnas.0603224103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1693794PMC
November 2006

A mobile element based phylogeny of Old World monkeys.

Mol Phylogenet Evol 2005 Dec 3;37(3):872-80. Epub 2005 Jun 3.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multi-scale Systems, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.ympev.2005.04.015DOI Listing
December 2005

SVA elements: a hominid-specific retroposon family.

J Mol Biol 2005 Dec 19;354(4):994-1007. Epub 2005 Oct 19.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.jmb.2005.09.085DOI Listing
December 2005

Modeling the amplification dynamics of human Alu retrotransposons.

PLoS Comput Biol 2005 Sep 30;1(4):e44. Epub 2005 Sep 30.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, Baton Rouge, Louisiana, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.0010044DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1239904PMC
September 2005

Under the genomic radar: the stealth model of Alu amplification.

Genome Res 2005 May;15(5):655-64

Department of Biological Sciences, Biological Computation and Visualization Center, Center for BioModular Multi-Scale Systems, Louisiana State University, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1101/gr.3492605DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1088293PMC
May 2005

Alu insertion loci and platyrrhine primate phylogeny.

Mol Phylogenet Evol 2005 Apr 18;35(1):117-26. Epub 2005 Jan 18.

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Multi-scale systems, Louisiana State University, 202 Life Sciences Bldg., Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.ympev.2004.10.023DOI Listing
April 2005

Alu element mutation spectra: molecular clocks and the effect of DNA methylation.

J Mol Biol 2004 Nov;344(3):675-82

Department of Biological Sciences, Biological Computation and Visualization Center, Center for Bio-Modular Microsystems, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.jmb.2004.09.058DOI Listing
November 2004

Comprehensive analysis of two Alu Yd subfamilies.

J Mol Evol 2003 ;57 Suppl 1:S76-89

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1007/s00239-003-0009-0DOI Listing
August 2004

Differential alu mobilization and polymorphism among the human and chimpanzee lineages.

Genome Res 2004 Jun;14(6):1068-75

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, Baton Rouge, Louisiana 70803, USA.

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http://dx.doi.org/10.1101/gr.2530404DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC419785PMC
June 2004

Resolution of mixed human DNA samples using mitochondrial DNA sequence variants.

Anal Biochem 2004 Feb;325(1):171-3

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/j.ab.2003.10.003DOI Listing
February 2004

Alu elements and hominid phylogenetics.

Proc Natl Acad Sci U S A 2003 Oct 15;100(22):12787-91. Epub 2003 Oct 15.

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1073/pnas.2133766100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC240696PMC
October 2003

Comprehensive analysis of Alu-associated diversity on the human sex chromosomes.

Gene 2003 Oct;317(1-2):103-10

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.

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http://dx.doi.org/10.1016/s0378-1119(03)00662-0DOI Listing
October 2003

Human DNA quantitation using Alu element-based polymerase chain reaction.

Anal Biochem 2003 Apr;315(1):122-8

Department of Biological Sciences, Biological Computation and Visualization Center, Louisiana State University, Baton Rouge, LA 70803, USA.

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https://biosci-batzerlab.biology.lsu.edu/Publications/Walker
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http://dx.doi.org/10.1016/s0003-2697(03)00081-2DOI Listing
April 2003