Searching journal content for articles similar to van Heeringen et al. 21 (3): 410.

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  1. Resource: Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis
    • Chirag Nepal,
    • Yavor Hadzhiev,
    • Christopher Previti,
    • Vanja Haberle,
    • Nan Li,
    • Hazuki Takahashi,
    • Ana Maria M. Suzuki,
    • Ying Sheng,
    • Rehab F. Abdelhamid,
    • Santosh Anand,
    • Jochen Gehrig,
    • Altuna Akalin,
    • Christel E.M. Kockx,
    • Antoine A.J. van der Sloot,
    • Wilfred F.J. van IJcken,
    • Olivier Armant,
    • Sepand Rastegar,
    • Craig Watson,
    • Uwe Strähle,
    • Elia Stupka,
    • Piero Carninci,
    • Boris Lenhard,
    • and Ferenc Müller
    Genome Res. November 2013 23: 1938-1950; Published in Advance September 3, 2013, doi:10.1101/gr.153692.112
    ...and its dynamic use during the development of a vertebrate embryo. By using cap analysis of gene expression (CAGE), we mapped transcription initiation events at single nucleotide resolution across 12 stages of zebrafish development. These CAGE-based transcriptome maps reveal -wide rules of core promoter...
  2. Resource: Genome-wide identification and characterization of transcription start sites and promoters in the tunicate Ciona intestinalis
    • Rui Yokomori,
    • Kotaro Shimai,
    • Koki Nishitsuji,
    • Yutaka Suzuki,
    • Takehiro G. Kusakabe,
    • and Kenta Nakai
    Genome Res. January 2016 26: 140-150; Published in Advance December 14, 2015, doi:10.1101/gr.184648.114
    ...′ sequences derived from 5′ capped mRNAs transcribed by RNA polymerase II, have enabled us to identify transcription start sites (TSSs) on a -wide scale and have contributed to the identification and characterization of core promoters (Suzuki et al. 2001; Carninci et al. 2005; Kawaji et al. 2006; van...
  3. Research: Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis
    • Ozren Bogdanović,
    • Steven W. Long,
    • Simon J. van Heeringen,
    • Arie B. Brinkman,
    • Jose Luis Gómez-Skarmeta,
    • Hendrik G. Stunnenberg,
    • Peter L. Jones,
    • and Gert Jan C. Veenstra
    Genome Res. August 2011 21: 1313-1327; Published in Advance June 2, 2011, doi:10.1101/gr.114843.110
    ...are they enriched for either histone modification or RNAPII. These data demonstrate a strong anticorrelation between DNAmethylation and H3K4me3-enriched CpGi core promoters, consistent with mechanisms that link H3K4 trimethylation to unmethylated CpGis by recruitment of CFP1 (Thomson et al. 2010). In contrast, Cp...
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