ArticlePLoS computational biology2017
Genome-Wide Association between Transcription Factor Expression and Chromatin Accessibility Reveals Regulators of Chromatin Accessibility.
Article in PLoS computational biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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Who cites it
11 citing papers in PubMed.
- Mapping the developmental trajectory of human astrocytes reveals divergence in glioblastoma.Nature cell biology · 2025Article
- Neonatal thyroxine activation modifies epigenetic programming of the liver.Nature communications · 2021Article
- Dissecting the binding mechanisms of transcription factors to DNA using a statistical thermodynamics framework.Computational and structural biotechnology journal · 2020Article
- Genome-wide chromatin accessibility and transcriptome profiling show minimal epigenome changes and coordinated transcriptional dysregulation of hedgehog signaling in Danforth's short tail mice.Human molecular genetics · 2019Article
- Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells.Genome research · 2019Article
- Epigenetic Regulation Of Axon Regeneration and Glial Activation in Injury Responses.Frontiers in genetics · 2019Review
- Developmental Chromatin Restriction of Pro-Growth Gene Networks Acts as an Epigenetic Barrier to Axon Regeneration in Cortical Neurons.Developmental neurobiology · 2018Article
- Evaluation of the Glypican 3 promoter for transcriptional targeting of hepatocellular carcinoma.Gene therapy · 2018Article
- Integrating ChIP-seq with other functional genomics data.Briefings in functional genomics · 2018Review
- The intracellular NADH level regulates atrophic nonunion pathogenesis through the CtBP2-p300-Runx2 transcriptional complex.International journal of biological sciences · 2018Article
- Transcriptional determination and functional specificity of myeloid cells: making sense of diversity.Nature reviews. Immunology · 2017Review
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To better understand genome regulation, it is important to uncover the role of transcription factors in the process of chromatin structure establishment and maintenance. Here we present a data-driven approach to systematically characterise transcription factors that are relevant for this process. Our method uses a linear mixed modelling approach to combine datasets of transcription factor binding motif enrichments in open chromatin and gene expression across the same set of cell lines. Applying this approach to the ENCODE dataset, we confirm already known and imply numerous novel transcription factors that play a role in the establishment or maintenance of open chromatin. In particular, our approach rediscovers many factors that have been annotated as pioneer factors.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.