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Showing 1–7 of 7 results
Advanced filters: Author: Amartya Sanyal Clear advanced filters

  • This overview of the ENCODE project outlines the data accumulated so far, revealing that 80% of the human genome now has at least one biochemical function assigned to it; the newly identified functional elements should aid the interpretation of results of genome-wide association studies, as many correspond to sites of association with human disease.

    • Ian Dunham
    • Anshul Kundaje
    • Ewan Birney
    ResearchOpen Access
    Nature
    Volume: 489, P: 57-74

  • An extensive map of human DNase I hypersensitive sites, markers of regulatory DNA, in 125 diverse cell and tissue types is described; integration of this information with other ENCODE-generated data sets identifies new relationships between chromatin accessibility, transcription, DNA methylation and regulatory factor occupancy patterns.

    • Robert E. Thurman
    • Eric Rynes
    • John A. Stamatoyannopoulos
    ResearchOpen Access
    Nature
    Volume: 489, P: 75-82

  • Chromosome conformation capture carbon copy (5C) is used to look at the relationships between functional elements and distal target genes in 1% of the human genome in three dimensions; the study describes numerous long-range interactions between promoters and distal sites that include elements resembling enhancers, promoters and CTCF-bound sites, their genomic distribution and complex interactions.

    • Amartya Sanyal
    • Bryan R. Lajoie
    • Job Dekker
    ResearchOpen Access
    Nature
    Volume: 489, P: 109-113

  • Understanding genomic organization in three dimensions may be one key to understanding gene regulation. Through the combination of an advanced version of chromosome conformation capture technology and an integrated modeling platform, the structure of the α-globin locus in cells where it is silent is compared to that in cells with high α-globin expression.

    • Davide Baù
    • Amartya Sanyal
    • Marc A Marti-Renom
    Research
    Nature Structural & Molecular Biology
    Volume: 18, P: 107-114

  • Long intergenic non-coding RNAs (lincRNAs) have been implicated in both gene silencing and activation, and could be a means for long-range control of gene expression. Here a lincRNA termed HOTTIP is identified at the 5′ tip of the HOXA locus that coordinates the activation of multiple 5′ HOXA genes. Chromosomal looping brings HOTTIP into the proximity of its target genes, where it seems to be required to facilitate histone H3 lysine 4 trimethylation and gene transcription.

    • Kevin C. Wang
    • Yul W. Yang
    • Howard Y. Chang
    Research
    Nature
    Volume: 472, P: 120-124