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Showing 1–5 of 5 results
Advanced filters: Author: Jeff A. Bilmes Clear advanced filters

  • Segway, a method using dynamic Bayesian network techniques, segments a genome and produces functional labels defined by histone modifications, transcription-factor binding, locations of open chromatin and other genome-wide functional data.

    • Michael M Hoffman
    • Orion J Buske
    • William Stafford Noble
    Research
    Nature Methods
    Volume: 9, P: 473-476

  • Obtaining a high-resolution contact map using current 3D genomics technologies can be challenging with small input cell numbers. Here, the authors develop ChromaFold, a deep learning model that predicts cell-type-specific 3D contact maps from single-cell chromatin accessibility data alone.

    • Vianne R. Gao
    • Rui Yang
    • Christina S. Leslie
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-15

  • Assays to characterize the epigenome and interrogate chromatin state genome wide have so far been performed in a selected set of conditions. Here, Durham et al. develop a computational method based on tensor decomposition to impute missing experiments in collections of epigenomics experiments.

    • Timothy J. Durham
    • Maxwell W. Libbrecht
    • William Stafford Noble
    ResearchOpen Access
    Nature Communications
    Volume: 9, P: 1-15

  • 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