Patric Jern

Summary

Affiliation: Uppsala University
Country: Sweden

Publications

  1. ncbi request reprint Full-length HERV-H elements with env SU open reading frames in the human genome
    Patric Jern
    Section of Virology, Department of Medical Science, Uppsala University, SE 751 85 Uppsala, Sweden
    AIDS Res Hum Retroviruses 18:671-6. 2002
  2. ncbi request reprint Definition and variation of human endogenous retrovirus H
    Patric Jern
    Section of Virology, Department of Medical Sciences, Uppsala University, SE 75185 Uppsala, Sweden
    Virology 327:93-110. 2004
  3. pmc Sequence variability, gene structure, and expression of full-length human endogenous retrovirus H
    Patric Jern
    Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Dag Hammarskjolds v 17, SE 751 85 Uppsala, Sweden
    J Virol 79:6325-37. 2005
  4. pmc Use of endogenous retroviral sequences (ERVs) and structural markers for retroviral phylogenetic inference and taxonomy
    Patric Jern
    Department of Medical Sciences, Uppsala University, Uppsala, Sweden
    Retrovirology 2:50. 2005
  5. pmc Divergent patterns of recent retroviral integrations in the human and chimpanzee genomes: probable transmissions between other primates and chimpanzees
    Patric Jern
    Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Dag Hammarskjolds v 17, SE 751 85 Uppsala, Sweden
    J Virol 80:1367-75. 2006
  6. pmc Evolutionary conservation of orthoretroviral long terminal repeats (LTRs) and ab initio detection of single LTRs in genomic data
    Farid Benachenhou
    Department of Medical Sciences, Section of Virology, Uppsala University, Uppsala, Sweden
    PLoS ONE 4:e5179. 2009
  7. pmc The first sequenced carnivore genome shows complex host-endogenous retrovirus relationships
    Alvaro Martínez Barrio
    Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden
    PLoS ONE 6:e19832. 2011
  8. pmc Automated recognition of retroviral sequences in genomic data--RetroTector
    Göran O Sperber
    Department of Neuroscience, Physiology and Uppsala University, Uppsala, Sweden
    Nucleic Acids Res 35:4964-76. 2007
  9. ncbi request reprint Development of broadly targeted human endogenous gammaretroviral pol-based real time PCRs Quantitation of RNA expression in human tissues
    Anna Forsman
    Section of Virology, Department of Medical Sciences, Academic Hospital, Uppsala University, 751 85 Uppasala, Sweden
    J Virol Methods 129:16-30. 2005
  10. pmc ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions
    Alexander Hayward
    Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden
    PLoS ONE 8:e59940. 2013

Collaborators

Detail Information

Publications13

  1. ncbi request reprint Full-length HERV-H elements with env SU open reading frames in the human genome
    Patric Jern
    Section of Virology, Department of Medical Science, Uppsala University, SE 751 85 Uppsala, Sweden
    AIDS Res Hum Retroviruses 18:671-6. 2002
    ..SU ORF sequences had a moderately high number of synonymous-versus-nonsynonymous mutations, which indicates a selection for maintenance of the HERV-H SU ORFs...
  2. ncbi request reprint Definition and variation of human endogenous retrovirus H
    Patric Jern
    Section of Virology, Department of Medical Sciences, Uppsala University, SE 75185 Uppsala, Sweden
    Virology 327:93-110. 2004
    ..A pattern of abundant defective elements and less abundant less defective ones led us to formulate a "midwife" master model where more complete elements help the others in trans to transpose...
  3. pmc Sequence variability, gene structure, and expression of full-length human endogenous retrovirus H
    Patric Jern
    Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Dag Hammarskjolds v 17, SE 751 85 Uppsala, Sweden
    J Virol 79:6325-37. 2005
    ..There was also alternative splicing. HERV-H consensus yielded new insights in gammaretroviral evolution and will be useful as a model in studies on expression and function...
  4. pmc Use of endogenous retroviral sequences (ERVs) and structural markers for retroviral phylogenetic inference and taxonomy
    Patric Jern
    Department of Medical Sciences, Uppsala University, Uppsala, Sweden
    Retrovirology 2:50. 2005
    ..The aim was to find traits useful for classification and evolutionary studies of retroviruses. Some of these traits have been used by others, but they are here tested in a wider context than before...
  5. pmc Divergent patterns of recent retroviral integrations in the human and chimpanzee genomes: probable transmissions between other primates and chimpanzees
    Patric Jern
    Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Dag Hammarskjolds v 17, SE 751 85 Uppsala, Sweden
    J Virol 80:1367-75. 2006
    ..The pattern was consistent with cross-species transfer via predation. This appears to be an example of horizontal transfer of retroviruses with occasional fixation in the germ line...
  6. pmc Evolutionary conservation of orthoretroviral long terminal repeats (LTRs) and ab initio detection of single LTRs in genomic data
    Farid Benachenhou
    Department of Medical Sciences, Section of Virology, Uppsala University, Uppsala, Sweden
    PLoS ONE 4:e5179. 2009
    ..Understanding of LTR structure increases understanding of LTR function, and of functional genomics. Here we develop models of orthoretroviral LTRs useful for detection in genomes and for structural analysis...
  7. pmc The first sequenced carnivore genome shows complex host-endogenous retrovirus relationships
    Alvaro Martínez Barrio
    Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden
    PLoS ONE 6:e19832. 2011
    ....
  8. pmc Automated recognition of retroviral sequences in genomic data--RetroTector
    Göran O Sperber
    Department of Neuroscience, Physiology and Uppsala University, Uppsala, Sweden
    Nucleic Acids Res 35:4964-76. 2007
    ..ReTe did not report most of the evolutionary old HERV-L related and MalR sequences, and is not yet tailored for single LTR detection. Nevertheless, ReTe rationally detects and annotates many retroviral sequences...
  9. ncbi request reprint Development of broadly targeted human endogenous gammaretroviral pol-based real time PCRs Quantitation of RNA expression in human tissues
    Anna Forsman
    Section of Virology, Department of Medical Sciences, Academic Hospital, Uppsala University, 751 85 Uppasala, Sweden
    J Virol Methods 129:16-30. 2005
    ..Gammaretroviral RNA was not detected in plasma from 50 blood donors in saliva from 20 persons. In conclusion, a set of tools for investigation of gammaretroviral HERV RNA expression was created...
  10. pmc ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions
    Alexander Hayward
    Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden
    PLoS ONE 8:e59940. 2013
    ..Our results offer new insights into the evolution of regulatory pathways, and suggest that DNA transposons have contributed to regulatory complexity during genome evolution in vertebrates...
  11. pmc Strong signatures of selection in the domestic pig genome
    Carl Johan Rubin
    Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, SE 751 23 Uppsala, Sweden
    Proc Natl Acad Sci U S A 109:19529-36. 2012
    ....
  12. pmc Role of APOBEC3 in genetic diversity among endogenous murine leukemia viruses
    Patric Jern
    Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts, USA
    PLoS Genet 3:2014-22. 2007
    ..Altogether, our results for the first time suggest mA3 editing immediately preceding the integration event that led to retroviral endogenization, contributing to inactivation of infectivity...
  13. doi request reprint Host-retrovirus arms race: trimming the budget
    Patric Jern
    Department of Molecular Biology and Microbiology, Tufts University School of Medicine, 136 Harrison Avenue, Boston, MA 02111, USA
    Cell Host Microbe 4:196-7. 2008
    ....