Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types.
Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA. · Cell reports · 2020 · Journal publication
Original publication · Original publication · Original publication
Recorded summary
Reference associated with Fractal TFBS Analysis / Fractal Chromatin 3D Organisation.
Recorded limitations
Bibliographic metadata matched; scientific claims await appraisal.
Evidence and provenance
Chapter Trust Factor uses a minimum of three distinct qualifying studies. Publication records retain their own evidence and assessment.
Study design and assessment
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Topics and recorded topic scores
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- Imaging, Transcriptomics and Gene Regulation
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- Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types.
- authors
- Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA.
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- Cell reports
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- 10.1016/j.celrep.2020.108029
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- original Citation
- Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA (2020). "Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types." Cell Reports 32(7):108029. PMC7462736 — Comprehensive atlas of genomic footprints across 27 human tissues from 192 DNase-seq experiments; predicted occupancy of 1,515 TFs; tissue-specific footprints span 9.8% of genome at optimal thresholds; strongly enriched for disease-associated SNPs; highest-scoring footprints contribute disproportionately to heritability for complex traits in disease-relevant tissues
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- Fractal TFBS Analysis / Fractal Chromatin 3D Organisation
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- https://www.notion.so/3807b9c99c5680599be7d8337c817b15
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- source Verification
- Bibliographic metadata matched; scientific claims await appraisal.
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- Hyperspectral Imaging · patent section 2.4
- title
- Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types.
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- Cell reports
- neurotransmitters
- None recorded
- year
- 2020
- authors
- Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA.
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https://pubmed.ncbi.nlm.nih.gov/32814038/ · https://doi.org/10.1016/j.celrep.2020.108029 · https://pmc.ncbi.nlm.nih.gov/articles/PMC7462736/
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Hyperspectral Imaging
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- Reference associated with Fractal TFBS Analysis / Fractal Chromatin 3D Organisation.
- limitation
- Bibliographic metadata matched; scientific claims await appraisal.
- citation Count
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- paper Trust Assessment
- scope
- Paper
- status
- unassessed
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- citations By Collection
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- Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types.
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- Cell reports
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- authors
- Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA.
- design
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https://pubmed.ncbi.nlm.nih.gov/32814038/ · https://doi.org/10.1016/j.celrep.2020.108029 · https://pmc.ncbi.nlm.nih.gov/articles/PMC7462736/
- quotes
- None recorded
- summary
- Reference associated with Fractal TFBS Analysis / Fractal Chromatin 3D Organisation.
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- Bibliographic metadata matched; scientific claims await appraisal.
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Hyperspectral Imaging
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- Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types.
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- Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA.
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- Not recorded
- original Citation
- Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA (2020). "Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types." Cell Reports 32(7):108029. PMC7462736 — Comprehensive atlas of genomic footprints across 27 human tissues from 192 DNase-seq experiments; predicted occupancy of 1,515 TFs; tissue-specific footprints span 9.8% of genome at optimal thresholds; strongly enriched for disease-associated SNPs; highest-scoring footprints contribute disproportionately to heritability for complex traits in disease-relevant tissues
- original Section
- Fractal TFBS Analysis / Fractal Chromatin 3D Organisation
- metadata Status
- metadata-matched
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- https://www.notion.so/3807b9c99c5680599be7d8337c817b15
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- https://pubmed.ncbi.nlm.nih.gov/32814038/
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- https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID%3APMC7462736&format=json&resultType=core&pageSize=4
- corrections
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- imaging-transcriptomics
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- Bibliographic metadata matched; scientific claims await appraisal.
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- Imaging, Transcriptomics and Gene Regulation
- trust Score
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- paper Trust Assessment
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- Paper
- status
- unassessed
- score
- Not recorded
- basis
- Bibliographic identity checks do not establish study design, blinding or evidential strength.
- jadad
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- unassessed
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- condition Evidence
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