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  1. Research: A hidden layer of structural variation in transposable elements reveals potential genetic modifiers in human disease-risk loci
    • Elisabeth J. van Bree,
    • Rita L.F.P. Guimarães,
    • Mischa Lundberg,
    • Elena R. Blujdea,
    • Jimi L. Rosenkrantz,
    • Fred T.G. White,
    • Josse Poppinga,
    • Paula Ferrer-Raventós,
    • Anne-Fleur E. Schneider,
    • Isabella Clayton,
    • David Haussler,
    • Marcel J.T. Reinders,
    • Henne Holstege,
    • Adam D. Ewing,
    • Colette Moses,
    • and Frank M.J. Jacobs
    Genome Res. April 2022 32: 656-670; Published in Advance March 24, 2022, doi:10.1101/gr.275515.121
    ...-read sequencing data, we discovered widespread structural variation within SINE-VNTR-Alu (SVA) elements, a class of great ape-specific transposable elements with gene-regulatory roles, which represents a major source of structural variability in the human population. We highlight the presence of structurally...
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  2. 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
    ...diverse TRIM28-devoid protein interactomes (Helleboid et al. 2019). Cumulated work has identified transposable elements (TEs) as major targets of KZFPs, which likely evolved both to control the spread of these genetic invaders and to facilitate the domestication of their regulatory potential (Wolf...
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  3. Research: ZNF91 deletion in human embryonic stem cells leads to ectopic activation of SVA retrotransposons and up-regulation of KRAB zinc finger gene clusters
    • Nina L. Haring,
    • Elisabeth J. van Bree,
    • Whitney S. Jordaan,
    • Judith R.E. Roels,
    • Gonzalo Congrains Sotomayor,
    • Tiziana M. Hey,
    • Fred T.G. White,
    • Marc D. Galland,
    • Marten P. Smidt,
    • and Frank M.J. Jacobs
    Genome Res. April 2021 31: 551-563; Published in Advance March 15, 2021, doi:10.1101/gr.265348.120
    ...regulation through the introduction of novel transcription factor (TF) binding sites important for chromatin remodeling (Sundaram et al. 2014), immunity (Chuong et al. 2016), brain development (Notwell et al. 2015), liver functioning (Trizzino et al. 2017, 2018), and stem cell pluripotency (Kunarso et al...
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  1. March 2026, 36 (3)
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