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Article
Open AccessThe ENCODE Imputation Challenge: a critical assessment of methods for cross-cell type imputation of epigenomic profiles
A promising alternative to comprehensively performing genomics experiments is to, instead, perform a subset of experiments and use computational methods to impute the remainder. However, identifying the best i...
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Article
Open AccessKLF4 recruits SWI/SNF to increase chromatin accessibility and reprogram the endothelial enhancer landscape under laminar shear stress
Physiologic laminar shear stress (LSS) induces an endothelial gene expression profile that is vasculo-protective. In this report, we delineate how LSS mediates changes in the epigenetic landscape to promote th...
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Article
The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation
Transcription factors bind DNA sequence motif vocabularies in cis-regulatory elements (CREs) to modulate chromatin state and gene expression during cell state transitions. A quantitative understanding of how moti...
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Article
Lineage-specific dynamic and pre-established enhancer–promoter contacts cooperate in terminal differentiation
Adam Rubin, Brook Barajas, Mayra Furlan-Magaril and colleagues studied dynamic chromatin across the genome of differentiating human skin keratinocytes, identifying both stable and reorganizing classes of trans...
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Article
Open AccessArchitecture of the human regulatory network derived from ENCODE data
Transcription factors bind in a combinatorial fashion to specify the on-and-off states of genes; the ensemble of these binding events forms a regulatory network, constituting the wiring diagram for a cell. To ...
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Article
Effects of anaerobic exercise and aerobic exercise on biomarkers of oxidative stress
In addition to having health-promoting effects, exercise is considered to induce oxidative stress. To clarify whether increased oxygen consumption during exercise induces oxidative stress, we investigated the ...
