Searching journal content for articles similar to Lowe et al. 28 (5): 766.1.

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  1. Resource: Epigenomics of embryogenesis in turbot
    • Oscar Aramburu,
    • Belen G Pardo,
    • Ada Jimenez-Gonzalez,
    • Andrés Blanco-Hortas,
    • Daniel Macqueen,
    • Carmen Bouza,
    • and Paulino Martinez
    Genome Res. November 4, 2025 gr.280355.124; Published in Advance November 4, 2025, doi:10.1101/gr.280355.124
    ...18 across consecutive stages. By integrating multi-histone ChIP-seq with ATAC-19 seq, we built a -wide chromatin state model, defining promoter and 20 enhancer activity across stages. Diverse transcription factor binding motifs were 21 detected within regulatory elements showing differential...
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  2. Research: Elasmobranch genome sequencing reveals evolutionary trends of vertebrate karyotype organization
    • Kazuaki Yamaguchi,
    • Yoshinobu Uno,
    • Mitsutaka Kadota,
    • Osamu Nishimura,
    • Ryo Nozu,
    • Kiyomi Murakumo,
    • Rui Matsumoto,
    • Keiichi Sato,
    • and Shigehiro Kuraku
    Genome Res. September 2023 33: 1527-1540; Published in Advance August 17, 2023, doi:10.1101/gr.276840.122
    ...with differential characteristics, and these characteristics are manifested not only in DNA sequences (e.g., GC content) but also in intragenomic heterogeneity of nonsequence features such as chromatin openness, replication timing, and recombination frequency. These features are thought to be associated with how...
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  3. Research: Motif conservation, stability, and host gene expression are the main drivers of snoRNA expression across vertebrates
    • Étienne Fafard-Couture,
    • Pierre-Étienne Jacques,
    • and Michelle S. Scott
    Genome Res. April 2023 33: 525-540; Published in Advance April 18, 2023, doi:10.1101/gr.277483.122
    ...expression (Lykke-Andersen et al. 2016; Nepal et al. 2020; Fafard-Couture et al. 2021). Furthermore, we and other groups have shown that the abundance of most snoRNAs does not correlate well with that of their host gene or even between snoRNA copies, with the observation that snoRNAs embedded within the same...
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  4. Research: Small chromosomal regions position themselves autonomously according to their chromatin class
    • Harmen J.G. van de Werken,
    • Josien C. Haan,
    • Yana Feodorova,
    • Dominika Bijos,
    • An Weuts,
    • Koen Theunis,
    • Sjoerd J.B. Holwerda,
    • Wouter Meuleman,
    • Ludo Pagie,
    • Katharina Thanisch,
    • Parveen Kumar,
    • Heinrich Leonhardt,
    • Peter Marynen,
    • Bas van Steensel,
    • Thierry Voet,
    • Wouter de Laat,
    • Irina Solovei,
    • and Boris Joffe
    Genome Res. June 2017 27: 922-933; Published in Advance March 24, 2017, doi:10.1101/gr.213751.116
    ...(Olshen et al. 2004), and DNA-copy number was estimated as 2logR ×Ψ, where Ψ denotes ploidy (Voet et al. 2013). Ψ was set to 1. To detect structural variants, we performed splitread and discordant read-pair analysis. In brief, paired-end sequences were mapped with BWA-MEM (http://arxiv.org/abs/ 1303...
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