Publications by authors named "Patric Jern"

29Publications

Characterization of the endogenous retrovirus insertion in associated with henny feathering in chicken.

Mob DNA 2019 28;10:38. Epub 2019 Aug 28.

1Department of Veterinary Integrative Biosciences, College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, College Station, TX 77843 USA.

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http://dx.doi.org/10.1186/s13100-019-0181-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6712707PMC
August 2019

Whole-Genome Analysis of Domestic Chicken Selection Lines Suggests Segregating Variation in ERV Makeups.

Genes (Basel) 2019 02 20;10(2). Epub 2019 Feb 20.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Box 582, SE-75123 Uppsala, Sweden.

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http://dx.doi.org/10.3390/genes10020162DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6410134PMC
February 2019

Whole-genome comparison of endogenous retrovirus segregation across wild and domestic host species populations.

Proc Natl Acad Sci U S A 2018 10 8;115(43):11012-11017. Epub 2018 Oct 8.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, SE-75123 Uppsala, Sweden

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http://www.pnas.org/lookup/doi/10.1073/pnas.1815056115
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http://dx.doi.org/10.1073/pnas.1815056115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6205466PMC
October 2018

TRIM28 Controls a Gene Regulatory Network Based on Endogenous Retroviruses in Human Neural Progenitor Cells.

Cell Rep 2017 01;18(1):1-11

Laboratory of Molecular Neurogenetics, Department of Experimental Medical Science, Wallenberg Neuroscience Center and Lund Stem Cell Center, BMC A11, Lund University, 221 84 Lund, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.12.010DOI Listing
January 2017

cgmisc: enhanced genome-wide association analyses and visualization.

Bioinformatics 2015 Dec 6;31(23):3830-1. Epub 2015 Aug 6.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden, Broad Institute of MIT and Harvard, Boston, MA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btv426DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4653382PMC
December 2015

TRIM28 represses transcription of endogenous retroviruses in neural progenitor cells.

Cell Rep 2015 Jan 24;10(1):20-8. Epub 2014 Dec 24.

Laboratory of Molecular Neurogenetics, Department of Experimental Medical Science, Wallenberg Neuroscience Center and Lund Stem Cell Center, Lund University, 221 84 Lund, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.12.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4434221PMC
January 2015

Pan-vertebrate comparative genomics unmasks retrovirus macroevolution.

Proc Natl Acad Sci U S A 2015 Jan 22;112(2):464-9. Epub 2014 Dec 22.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, SE-75123, Sweden; and

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http://dx.doi.org/10.1073/pnas.1414980112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4299219PMC
January 2015

Broad-scale phylogenomics provides insights into retrovirus-host evolution.

Proc Natl Acad Sci U S A 2013 Dec 25;110(50):20146-51. Epub 2013 Nov 25.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala Biomedical Centre, SE-75123 Uppsala, Sweden.

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http://dx.doi.org/10.1073/pnas.1315419110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3864273PMC
December 2013

Unsupervised genome-wide recognition of local relationship patterns.

BMC Genomics 2013 May 24;14:347. Epub 2013 May 24.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1186/1471-2164-14-347DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3669000PMC
May 2013

ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions.

PLoS One 2013 22;8(3):e59940. Epub 2013 Mar 22.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0059940PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3606216PMC
September 2013

Analyses of pig genomes provide insight into porcine demography and evolution.

Authors:
Martien A M Groenen Alan L Archibald Hirohide Uenishi Christopher K Tuggle Yasuhiro Takeuchi Max F Rothschild Claire Rogel-Gaillard Chankyu Park Denis Milan Hendrik-Jan Megens Shengting Li Denis M Larkin Heebal Kim Laurent A F Frantz Mario Caccamo Hyeonju Ahn Bronwen L Aken Anna Anselmo Christian Anthon Loretta Auvil Bouabid Badaoui Craig W Beattie Christian Bendixen Daniel Berman Frank Blecha Jonas Blomberg Lars Bolund Mirte Bosse Sara Botti Zhan Bujie Megan Bystrom Boris Capitanu Denise Carvalho-Silva Patrick Chardon Celine Chen Ryan Cheng Sang-Haeng Choi William Chow Richard C Clark Christopher Clee Richard P M A Crooijmans Harry D Dawson Patrice Dehais Fioravante De Sapio Bert Dibbits Nizar Drou Zhi-Qiang Du Kellye Eversole João Fadista Susan Fairley Thomas Faraut Geoffrey J Faulkner Katie E Fowler Merete Fredholm Eric Fritz James G R Gilbert Elisabetta Giuffra Jan Gorodkin Darren K Griffin Jennifer L Harrow Alexander Hayward Kerstin Howe Zhi-Liang Hu Sean J Humphray Toby Hunt Henrik Hornshøj Jin-Tae Jeon Patric Jern Matthew Jones Jerzy Jurka Hiroyuki Kanamori Ronan Kapetanovic Jaebum Kim Jae-Hwan Kim Kyu-Won Kim Tae-Hun Kim Greger Larson Kyooyeol Lee Kyung-Tai Lee Richard Leggett Harris A Lewin Yingrui Li Wansheng Liu Jane E Loveland Yao Lu Joan K Lunney Jian Ma Ole Madsen Katherine Mann Lucy Matthews Stuart McLaren Takeya Morozumi Michael P Murtaugh Jitendra Narayan Dinh Truong Nguyen Peixiang Ni Song-Jung Oh Suneel Onteru Frank Panitz Eung-Woo Park Hong-Seog Park Geraldine Pascal Yogesh Paudel Miguel Perez-Enciso Ricardo Ramirez-Gonzalez James M Reecy Sandra Rodriguez-Zas Gary A Rohrer Lauretta Rund Yongming Sang Kyle Schachtschneider Joshua G Schraiber John Schwartz Linda Scobie Carol Scott Stephen Searle Bertrand Servin Bruce R Southey Goran Sperber Peter Stadler Jonathan V Sweedler Hakim Tafer Bo Thomsen Rashmi Wali Jian Wang Jun Wang Simon White Xun Xu Martine Yerle Guojie Zhang Jianguo Zhang Jie Zhang Shuhong Zhao Jane Rogers Carol Churcher Lawrence B Schook

Nature 2012 Nov;491(7424):393-8

Animal Breeding and Genomics Centre, Wageningen University, De Elst 1, 6708 WD, Wageningen, The Netherlands.

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http://www.umass.edu/vetimm/docs/Groenen_etal_2012.pdf
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http://www.nature.com/doifinder/10.1038/nature11622
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http://dx.doi.org/10.1038/nature11622DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3566564PMC
November 2012

Strong signatures of selection in the domestic pig genome.

Proc Natl Acad Sci U S A 2012 Nov 14;109(48):19529-36. Epub 2012 Nov 14.

Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, SE-751 23 Uppsala, Sweden.

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http://dx.doi.org/10.1073/pnas.1217149109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3511700PMC
November 2012

Studies on the restriction of murine leukemia viruses by mouse APOBEC3.

PLoS One 2012 29;7(5):e38190. Epub 2012 May 29.

HIV Drug Resistance Program, National Cancer Institute, Frederick National Laboratory for Cancer Research, Frederick, Maryland, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0038190PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3362552PMC
October 2012

Likely role of APOBEC3G-mediated G-to-A mutations in HIV-1 evolution and drug resistance.

PLoS Pathog 2009 Apr 3;5(4):e1000367. Epub 2009 Apr 3.

Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, MA, USA.

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http://dx.doi.org/10.1371/journal.ppat.1000367DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2659435PMC
April 2009

Host-retrovirus arms race: trimming the budget.

Cell Host Microbe 2008 Sep;4(3):196-7

Department of Molecular Biology and Microbiology, Tufts University School of Medicine, 136 Harrison Avenue, Boston, MA 02111, USA.

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http://dx.doi.org/10.1016/j.chom.2008.08.008DOI Listing
September 2008

Effects of retroviruses on host genome function.

Annu Rev Genet 2008 ;42:709-32

Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts 02111, USA.

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http://dx.doi.org/10.1146/annurev.genet.42.110807.091501DOI Listing
February 2009

Role of APOBEC3 in genetic diversity among endogenous murine leukemia viruses.

PLoS Genet 2007 Oct 10;3(10):2014-22. Epub 2007 Sep 10.

Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1371/journal.pgen.0030183DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2041998PMC
October 2007

Automated recognition of retroviral sequences in genomic data--RetroTector.

Nucleic Acids Res 2007 17;35(15):4964-76. Epub 2007 Jul 17.

Department of Neuroscience, Physiology and Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1093/nar/gkm515DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1976444PMC
October 2007

Divergent patterns of recent retroviral integrations in the human and chimpanzee genomes: probable transmissions between other primates and chimpanzees.

J Virol 2006 Feb;80(3):1367-75

Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Dag Hammarskjolds v. 17, SE-751 85 Uppsala, Sweden.

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http://jvi.asm.org/cgi/doi/10.1128/JVI.80.3.1367-1375.2006
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http://dx.doi.org/10.1128/JVI.80.3.1367-1375.2006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1346942PMC
February 2006

Development of broadly targeted human endogenous gammaretroviral pol-based real time PCRs Quantitation of RNA expression in human tissues.

J Virol Methods 2005 Oct;129(1):16-30

Section of Virology, Department of Medical Sciences, Academic Hospital, Uppsala University, 751 85 Uppasala, Sweden.

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http://dx.doi.org/10.1016/j.jviromet.2005.04.016DOI Listing
October 2005

Sequence variability, gene structure, and expression of full-length human endogenous retrovirus H.

J Virol 2005 May;79(10):6325-37

Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Dag Hammarskjolds v. 17, SE-751 85 Uppsala, Sweden.

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http://dx.doi.org/10.1128/JVI.79.10.6325-6337.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1091717PMC
May 2005

Definition and variation of human endogenous retrovirus H.

Virology 2004 Sep;327(1):93-110

Section of Virology, Department of Medical Sciences, Uppsala University, SE-75185 Uppsala, Sweden.

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http://linkinghub.elsevier.com/retrieve/pii/S004268220400425
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http://dx.doi.org/10.1016/j.virol.2004.06.023DOI Listing
September 2004

Full-length HERV-H elements with env SU open reading frames in the human genome.

AIDS Res Hum Retroviruses 2002 Jun;18(9):671-6

Section of Virology, Department of Medical Science, Uppsala University, SE-751 85 Uppsala, Sweden.

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http://dx.doi.org/10.1089/088922202760019383DOI Listing
June 2002