Searching journal content for articles similar to Grishkevich et al. 21 (5): 707.

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  1. Research: Nucleosome fragility is associated with future transcriptional response to developmental cues and stress in C. elegans
    • Tess E. Jeffers and
    • Jason D. Lieb
    Genome Res. January 2017 27: 75-86; Published in Advance November 14, 2016, doi:10.1101/gr.208173.116
    ...JE, Phillips D, Skidmore CJ, Walker IO. 1978. The interaction of core histones withDNA: equilibrium binding studies. Nucleic Acids Res 5: 3643–3664. Chen RAJ, Stempor P, Down TA, Zeiser E, Feuer SK, Ahringer J. 2014. Extreme HOT regions are CpG-dense promoters in C. elegans and humans. Genome Res 24...
  2. Resource: Genome-wide discovery of active regulatory elements and transcription factor footprints in Caenorhabditis elegans using DNase-seq
    • Margaret C.W. Ho,
    • Porfirio Quintero-Cadena,
    • and Paul W. Sternberg
    Genome Res. December 2017 27: 2108-2119; Published in Advance October 26, 2017, doi:10.1101/gr.223735.117
    .... 2011), followed by the IDR framework (Li et al. 2011; The ENCODE Project Consortium 2012). TF footprints were identified with DNase2TF (Sung et al. 2014). Gene annotation with WormBase WS241, statistics, and analysis was accomplished using custom scripts written in Python (Python Core Team 2010...
  3. Resource: The transcription start site landscape of C. elegans
    • Taro Leo Saito,
    • Shin-ichi Hashimoto,
    • Sam Guoping Gu,
    • J. Jason Morton,
    • Michael Stadler,
    • Thomas Blumenthal,
    • Andrew Fire,
    • and Shinichi Morishita
    Genome Res. August 2013 23: 1348-1361; Published in Advance May 1, 2013, doi:10.1101/gr.151571.112
    ...and a more pronounced array of positioned nucleosomes were associated with trans-splicing activity.We therefore examined nucleosome positioning around SL1 sites and found that nucleosome cores were enriched ;40 bp downstream from SL1 sites (Fig. 2C). One possibility was that this enrichment might reflect...
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  4. Method: 2C-Cas9: a versatile tool for clonal analysis of gene function
    • Vincenzo Di Donato,
    • Flavia De Santis,
    • Thomas O. Auer,
    • Noé Testa,
    • Héctor Sánchez-Iranzo,
    • Nadia Mercader,
    • Jean-Paul Concordet,
    • and Filippo Del Bene
    Genome Res. May 2016 26: 681-692; Published in Advance March 8, 2016, doi:10.1101/gr.196170.115
    ...analysis. This step is essential to correlate phenotype with genotype for analysis of gene function, a task that was not addressed with previously published methods.ResultsDesign of a vector system for spatiotemporal control of Cas9 activity via Gal/UASThe generation of conditional knockout models requires...
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