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Mapping of long-range chromatin interactions by proximity ligation-assisted ChIP-seq
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“Additionally, ChIP-based proximity ligation assays, such as PLAC-seq67, rely on the use of antibodies to pull down pre-specified regions associated with certain histone marks that can demarcate putative enhancer (H3K27ac) or promoter (H3K4me3) regions.”
From Variant-to-function mapping of late-onset Alzheimer’s disease GWAS signals in human microglial cell models implicates RTFDC1 at the CASS4 locus (2024) · cites this paper as [67]
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A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Rao, S. S. P., Huntley, M. H., Durand, N. C., Stamenova, E. K., Bochkov, I. D., Robinson, J. T., Sanborn, A. L., Machol, I., Omer, A. D., Lander, E. S., et al. (2014) · Cell · doi:10.1016/j.cell.2014.11.021 · Cited by 9,212
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Lieberman-Aiden, E., van Berkum, N. L., Williams, L., Imakaev, M., Ragoczy, T., Telling, A., Amit, I., Lajoie, B. R., Sabo, P. J., Dorschner, M. O., et al. (2009) · Science · doi:10.1126/science.1181369 · Cited by 8,898
Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom
Durand, N. C., Robinson, J., Shamim, M. S., Machol, I., Mesirov, J. P., Lander, E. S., & Aiden, E. L. (2016) · Cell Systems · doi:10.1016/j.cels.2015.07.012 · Cited by 2,421
An oestrogen-receptor-α-bound human chromatin interactome
Fullwood, M. J., Liu, M. H., Pan, Y. F., Liu, J., Han, X., Mohamed, Y. B., Orlov, Y. L., Velkov, S., Ho, A., Poh, H. M., et al. (2009) · Nature · doi:10.1038/nature08497 · Cited by 1,752
A map of the cis-regulatory sequences in the mouse genome
Shen, Y., Yue, F., McCleary, D. F., Ye, Z., Edsall, L., Kuan, S., Wagner, U., Dixon, J., Lee, L., Lobanenkov, V. V., et al. (2012) · Nature · doi:10.1038/nature11243 · Cited by 1,361
Self-citationHiChIP: efficient and sensitive analysis of protein-directed genome architecture
Mumbach, M. R., Rubin, A. J., Flynn, R. A., Dai, C., Khavari, P. A., Greenleaf, W. J., & Chang, H. Y. (2016) · Nature Methods · doi:10.1038/nmeth.3999 · Cited by 1,139
Exploring the three-dimensional organization of genomes: Interpreting chromatin interaction data
Dekker, J., Marti-Renom, M. A., & Mirny, L. A. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3454 · Cited by 1,068
Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C
Mifsud, B., Tavares-Cadete, F., Young, A. N., Sugar, R., Schoenfelder, S., Ferreira, L., Wingett, S. W., Andrews, S., Grey, W., Ewels, P. A., et al. (2015) · Nature Genetics · doi:10.1038/ng.3286 · Cited by 990
CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription
Tang, Z., Luo, O. J., Li, X., Zheng, M., Zhu, J. J., Szalaj, P., Trzaskoma, P., Magalska, A., Wlodarczyk, J., Ruszczycki, B., et al. (2015) · Cell · doi:10.1016/j.cell.2015.11.024 · Cited by 982
Self-citationTopology of mammalian developmental enhancers and their regulatory landscapes
de Laat, W., & Duboule, D. (2013) · Nature · doi:10.1038/nature12753 · Cited by 521
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Metadata
- Authors
- Fang, R., Yu, M., Li, G., Chee, S., Liu, T., Schmitt, A. D., & Ren, B.
- Affiliations
- University of California San Diego (US)
- Ludwig Cancer Research (US)
- Corresponding author
- Ren, Bing
- Venue
- Cell Research
- Published
- 2016-11-25
- Volume
- 26
- Issue
- 12
- Pages
- 1345-1348
- ISSN
- 1001-0602 (ISSN-L)
- 1748-7838
- PMC
- PMC5143423
- OpenAlex
- W2951184828
- Cited by
- 344
- References
- 23
- Citations by year
- 2026: 27 · 2025: 21 · 2024: 36 · 2023: 43 · 2022: 53 · 2021: 60 · 2020: 44 · 2019: 30 · 2018: 21 · 2017: 6
- FWCI
- 9.88
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Cell Research (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Ludwig Institute for Cancer Research (U54 HG006997)
- National Institutes of Health (GM085764)
- National Human Genome Research Institute (U54HG006997)
- National Institute of General Medical Sciences (P50GM085764, T32GM008666)
- National Institute of Diabetes and Digestive and Kidney Diseases (U54DK107977)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Chromosomal and Genetic Variations
- Keywords
- long-range chromatin interactions, chromatin looping, proximity ligation, ChIA-PET, distal enhancers, transcriptional activation, Hi-C, chromatin conformation, transcription factor binding sites, histone modifications, ChIP-seq, mammalian cells
- MeSH terms
- Mouse Embryonic Stem Cells, Algorithms, Animals, Chromatin, Enhancer Elements, Genetic, Humans, Promoter Regions, Genetic, RNA Polymerase II, Sequence Analysis, DNA, Chromatin Immunoprecipitation, Mice, High-Throughput Nucleotide Sequencing
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