Searching journal content for articles similar to Ay et al. 24 (6): 974.

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  1. Method: Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression
    • Maxwell W. Libbrecht,
    • Ferhat Ay,
    • Michael M. Hoffman,
    • David M. Gilbert,
    • Jeffrey A. Bilmes,
    • and William Stafford Noble
    Genome Res. April 2015 25: 544-557; Published in Advance February 12, 2015, doi:10.1101/gr.184341.114
    ..., we produced a model of chromatin domains in eight human cell types, thereby revealing the relationships among known domain types. Through this model, we identified clusters of tightly regulated genes expressed in only a small number of cell types, which we term “specific expression domains.” We found...
  2. Method: Systematic identification of interchromosomal interaction networks supports the existence of specialized RNA factories
    • Borislav Hrisimirov Hristov,
    • William Stafford Noble,
    • and Alessandro Bertero
    Genome Res. October 2024 34: 1610-1623; Published in Advance September 25, 2024, doi:10.1101/gr.278327.123
    .... falciparum immune evasionHaving developed trans-C, we set out to test its ability to uncover known sets of loci that interact together in trans in three different organisms. First, we focused on the protozoan Plasmodium falciparum, the parasite responsible for the most lethal form of malaria. The three-dimensional...
  3. Research: Complete avian malaria parasite genomes reveal features associated with lineage-specific evolution in birds and mammals
    • Ulrike Böhme,
    • Thomas D. Otto,
    • James A. Cotton,
    • Sascha Steinbiss,
    • Mandy Sanders,
    • Samuel O. Oyola,
    • Antoine Nicot,
    • Sylvain Gandon,
    • Kailash P. Patra,
    • Colin Herd,
    • Ellen Bushell,
    • Katarzyna K. Modrzynska,
    • Oliver Billker,
    • Joseph M. Vinetz,
    • Ana Rivero,
    • Chris I. Newbold,
    • and Matthew Berriman
    Genome Res. April 2018 28: 547-560; Published in Advance March 2, 2018, doi:10.1101/gr.218123.116
    ...by a three-dimensional model created using I-TASSER (Supplemental Fig. S5; Yang et al. 2015). However, an ortholog of Ku80 (the obligate partner of Ku70 in NHEJ activity) is not present (Fell and Schild-Poulter 2015).An unusual SNF1-like kinase, KIN, plays a key role in cellular energy metabolism...
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  4. Research: Topologically associating domains and their long-range contacts are established during early G1 coincident with the establishment of the replication-timing program
    • Vishnu Dileep,
    • Ferhat Ay,
    • Jiao Sima,
    • Daniel L. Vera,
    • William S. Noble,
    • and David M. Gilbert
    Genome Res. August 2015 25: 1104-1113; Published in Advance May 20, 2015, doi:10.1101/gr.183699.114
    ...of the P. falciparum during the erythrocytic cycle reveals a strong connection between architecture and gene expression. Genome Res 24: 974–988. ↵Bernstein BE, Birney E, Dunham I, Green ED, Gunter C, Snyder M. 2012. An integrated encyclopedia of DNA elements in the human . Nature 489: 57–74. ↵Besnard E...
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