Searching journal content for articles similar to Goszczynski et al. 31 (4): 732.

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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
    ...a karyotypically normal, immortalized human aortic endothelial cell line (TeloHAEC) (Fish et al. 2017; Alizada et al. 2021). This profiling was achieved using ChRO-seq (Chromatin Run-On sequencing [Chu et al. 2018]) which reveals bi-directional transcription of enhancer RNAs (eRNAs), a hallmark of active enhancers...
  2. Research: DNA damage induces targeted, genome-wide variation of poly(A) sites in budding yeast
    • Joel H. Graber,
    • Fathima I. Nazeer,
    • Pei-chun Yeh,
    • Jason N. Kuehner,
    • Sneha Borikar,
    • Derick Hoskinson,
    • and Claire L. Moore
    Genome Res. October 2013 23: 1690-1703; Published in Advance June 20, 2013, doi:10.1101/gr.144964.112
    ...), which searches for over- and underrepresented Gene Ontology (Ashburner et al. 2000) terms, including corrections for multiple hypothesis testing. Analysis of the genes whose short transcripts were suppressed revealed significant categories of both over- and underrepresented terms (Supplemental Tables 1...
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  3. Method: Massively parallel cis-regulatory analysis in the mammalian central nervous system
    • Susan Q. Shen,
    • Connie A. Myers,
    • Andrew E.O. Hughes,
    • Leah C. Byrne,
    • John G. Flannery,
    • and Joseph C. Corbo
    Genome Res. February 2016 26: 238-255; Published in Advance November 17, 2015, doi:10.1101/gr.193789.115
    ...tissue (Natarajan et al. 2012; Heinz et al. 2015), we also examined the genes associated with the target DHSs based on the nearest TSS (Supplemental Table S1). Gene Ontology (GO) analysis (Carbon et al. 2009) revealed an enrichment for tissue-specific functions that corresponded to the tissue of DHS...
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