Patric Jern

Summary

Affiliation: Uppsala University
Country: Sweden

Publications

  1. ncbi 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 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. ncbi 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. ncbi 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. ncbi 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. ncbi 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. ncbi 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. ncbi 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 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. ncbi 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

Collaborators

Detail Information

Publications12

  1. ncbi 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 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. ncbi 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. ncbi 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. ncbi 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. ncbi 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. ncbi 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. ncbi 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 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. ncbi 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
    ....
  11. ncbi 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...
  12. ncbi 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
    ....