Searching journal content for Timothy R. Hughes in author.

Displaying results 1-9 of 9
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  1. Research: Multi-species analysis of inflammatory response elements reveals ancient and lineage-specific contributions of transposable elements to NF-kB binding
    • Liangxi Wang,
    • Tiegh Taylor,
    • Kumaragurubaran Rathnakumar,
    • Nadiya Khyzha,
    • Minggao Liang,
    • Azad Alizada,
    • Laura F. Campitelli,
    • Sara E. Pour,
    • Zain M. Patel,
    • Lina Antounians,
    • Ian C. Tobias,
    • Huayun Hou,
    • Timothy R. Hughes,
    • Sushmita Roy,
    • Jennifer A. Mitchell,
    • Jason E. Fish,
    • and Michael D. Wilson
    Genome Res. July 2025 35: 1544-1559; Published in Advance June 6, 2025, doi:10.1101/gr.280357.124
  2. Research: The human genome contains over a million autonomous exons
    • Nicholas Stepankiw,
    • Ally W.H. Yang,
    • and Timothy R. Hughes
    Genome Res. November 2023 33: 1865-1878; Published in Advance November 9, 2023, doi:10.1101/gr.277792.123
    OPEN ACCESS ARTICLE
  3. Research: Binding specificities of human RNA-binding proteins toward structured and linear RNA sequences
    • Arttu Jolma,
    • Jilin Zhang,
    • Estefania Mondragón,
    • Ekaterina Morgunova,
    • Teemu Kivioja,
    • Kaitlin U. Laverty,
    • Yimeng Yin,
    • Fangjie Zhu,
    • Gleb Bourenkov,
    • Quaid Morris,
    • Timothy R. Hughes,
    • Louis James Maher III,
    • and Jussi Taipale
    Genome Res. July 2020 30: 962-973; Published in Advance July 23, 2020, doi:10.1101/gr.258848.119
    OPEN ACCESS ARTICLE
  4. Resource: A physical and genetic map of Cannabis sativa identifies extensive rearrangements at the THC/CBD acid synthase loci
    • Kaitlin U. Laverty,
    • Jake M. Stout,
    • Mitchell J. Sullivan,
    • Hardik Shah,
    • Navdeep Gill,
    • Larry Holbrook,
    • Gintaras Deikus,
    • Robert Sebra,
    • Timothy R. Hughes,
    • Jonathan E. Page,
    • and Harm van Bakel
    Genome Res. January 2019 29: 146-156; Published in Advance November 8, 2018, doi:10.1101/gr.242594.118
    OPEN ACCESS ARTICLE
  5. Resource: Multiparameter functional diversity of human C2H2 zinc finger proteins
    • Frank W. Schmitges,
    • Ernest Radovani,
    • Hamed S. Najafabadi,
    • Marjan Barazandeh,
    • Laura F. Campitelli,
    • Yimeng Yin,
    • Arttu Jolma,
    • Guoqing Zhong,
    • Hongbo Guo,
    • Tharsan Kanagalingam,
    • Wei F. Dai,
    • Jussi Taipale,
    • Andrew Emili,
    • Jack F. Greenblatt,
    • and Timothy R. Hughes
    Genome Res. December 2016 26: 1742-1752; Published in Advance November 16, 2016, doi:10.1101/gr.209643.116
    OPEN ACCESS ARTICLE
  6. Research: Identifying mRNA sequence elements for target recognition by human Argonaute proteins
    • Jingjing Li,
    • TaeHyung Kim,
    • Razvan Nutiu,
    • Debashish Ray,
    • Timothy R. Hughes,
    • and Zhaolei Zhang
    Genome Res. May 2014 24: 775-785; Published in Advance March 24, 2014, doi:10.1101/gr.162230.113
  7. Method: A unified model for yeast transcript definition
    • Carl G. de Boer,
    • Harm van Bakel,
    • Kyle Tsui,
    • Joyce Li,
    • Quaid D. Morris,
    • Corey Nislow,
    • Jack F. Greenblatt,
    • and Timothy R. Hughes
    Genome Res. January 2014 24: 154-166; Published in Advance October 29, 2013, doi:10.1101/gr.164327.113
    OPEN ACCESS ARTICLE
  8. Method: CG methylated microarrays identify a novel methylated sequence bound by the CEBPB|ATF4 heterodimer that is active in vivo
    • Ishminder K. Mann,
    • Raghunath Chatterjee,
    • Jianfei Zhao,
    • Ximiao He,
    • Matthew T. Weirauch,
    • Timothy R. Hughes,
    • and Charles Vinson
    Genome Res. June 2013 23: 988-997; Published in Advance April 16, 2013, doi:10.1101/gr.146654.112
  9. Method: Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities
    • Arttu Jolma,
    • Teemu Kivioja,
    • Jarkko Toivonen,
    • Lu Cheng,
    • Gonghong Wei,
    • Martin Enge,
    • Mikko Taipale,
    • Juan M. Vaquerizas,
    • Jian Yan,
    • Mikko J. Sillanpää,
    • Martin Bonke,
    • Kimmo Palin,
    • Shaheynoor Talukder,
    • Timothy R. Hughes,
    • Nicholas M. Luscombe,
    • Esko Ukkonen,
    • and Jussi Taipale
    Genome Res. June 2010 20: 861-873; Published in Advance April 8, 2010, doi:10.1101/gr.100552.109
    OPEN ACCESS ARTICLE
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