Searching journal content for articles similar to Contreras-Galindo et al. 23 (9): 1505.

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  1. Research: Integration site-dependent HIV-1 promoter activity shapes host chromatin conformation
    • Jack A. Collora and
    • Ya-Chi Ho
    Genome Res. June 9, 2023 gr.277698.123; Published in Advance June 9, 2023, doi:10.1101/gr.277698.123
    ...that recruits additional transcriptional factors to the 11 integration locus, increases chromatin accessibility, changes 3D chromatin interactions, and enhances both 12 retroviral and host gene expression. We used 4 well-characterized HIV-1-infected cell line clones having 13 unique integration sites and low...
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  2. LETTER: Athila4 of Arabidopsis and Calypso of Soybean Define a Lineage of Endogenous Plant Retroviruses
    • David A. Wright and
    • Daniel F. Voytas
    Genome Res. January 1, 2002 12: 122-131; Published in Advance December 14, 2001, doi:10.1101/gr.196001
    ..., 99 aa for HIV; Merkulov et al. 1996 ; Coffin et al. 1997 ). Following protease is ∼520 amino acids that comprise reverse transcriptase. Reverse transcriptase shares ∼68% amino acid identity among elements. All seven conserved amino acid sequence domains characteristic of retroviral...
  3. Method: Rapid molecular assays to study human centromere genomics
    • Rafael Contreras-Galindo,
    • Sabrina Fischer,
    • Anjan K. Saha,
    • John D. Lundy,
    • Patrick W. Cervantes,
    • Mohamad Mourad,
    • Claire Wang,
    • Brian Qian,
    • Manhong Dai,
    • Fan Meng,
    • Arul Chinnaiyan,
    • Gilbert S. Omenn,
    • Mark H. Kaplan,
    • and David M. Markovitz
    Genome Res. December 2017 27: 2040-2049; Published in Advance November 15, 2017, doi:10.1101/gr.219709.116
    ..., Ferlenghi I, Giusti F, Lorenzo E, Gitlin SD, Dosik MH, Yamamura Y, et al. 2013. HIV infection reveals widespread expansion of novel centromeric human endogenous retroviruses. Genome Res 23: 1505–1513. ↵Fachinetti D, Han JS, McMahon MA, Ly P, Abdullah A, Wong AJ, Cleveland DW. 2015. DNA sequence...
  4. Research: Arabidopsis retrotransposon virus-like particles and their regulation by epigenetically activated small RNA
    • Seung Cho Lee,
    • Evan Ernst,
    • Benjamin Berube,
    • Filipe Borges,
    • Jean-Sebastien Parent,
    • Paul Ledon,
    • Andrea Schorn,
    • and Robert A. Martienssen
    Genome Res. April 2020 30: 576-588; Published in Advance April 17, 2020, doi:10.1101/gr.259044.119
    ...catalog of active LTR retrotransposons without the need for mapping transposition, as well as independent of genomic copy number. Linear replication intermediates of the functionally intact COPIA element EVADE revealed multiple central polypurine tracts (cPPTs), a feature shared with HIV in which c...
  5. Resource: Genetic features and genomic targets of human KRAB-zinc finger proteins
    • Jonas de Tribolet-Hardy,
    • Christian W. Thorball,
    • Romain Forey,
    • Evarist Planet,
    • Julien Duc,
    • Alexandre Coudray,
    • Bara Khubieh,
    • Sandra Offner,
    • Cyril Pulver,
    • Jacques Fellay,
    • Michael Imbeault,
    • Priscilla Turelli,
    • and Didier Trono
    Genome Res. August 2023 33: 1409-1423; Published in Advance September 20, 2023, doi:10.1101/gr.277722.123
    ...get lost over time because of genetic drift. Most human TEs are retrotransposons spreading by a copy-and-paste mechanism, be they LTR (long terminal repeat)-containing endogenous retroviruses (ERVs), long and short interspersed nuclear elements (LINEs and SINEs), or the composite SINE-variable number...
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