ArticleNucleic acids research2017
Robust detection of chromosomal interactions from small numbers of cells using low-input Capture-C.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- 3D Chromatin Architecture During Early Development: New Methods and New Findings.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Three-dimensional genome architecture coordinates key regulators of lineage specification in mammary epithelial cells.Cell genomics · 2023Article
- Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C.Nature methods · 2023Article
- Low input capture Hi-C (liCHi-C) identifies promoter-enhancer interactions at high-resolution.Nature communications · 2023Article
- Erythroid Cell Research: 3D Chromatin, Transcription Factors and Beyond.International journal of molecular sciences · 2022Review
- Dynamic Runx1 chromatin boundaries affect gene expression in hematopoietic development.Nature communications · 2022Article
- Capture-C: a modular and flexible approach for high-resolution chromosome conformation capture.Nature protocols · 2022Review
- CD4+ T cells from children with active juvenile idiopathic arthritis show altered chromatin features associated with transcriptional abnormalities.Scientific reports · 2021Article
- Dynamics of the 4D genome during in vivo lineage specification and differentiation.Nature communications · 2020Article
- Exonuclease combinations reduce noises in 3D genomics technologies.Nucleic acids research · 2020Article
- Methods for mapping 3D chromosome architecture.Nature reviews. Genetics · 2020Review
- A revised model for promoter competition based on multi-way chromatin interactions at the α-globin locus.Nature communications · 2019Article
- A tissue-specific self-interacting chromatin domain forms independently of enhancer-promoter interactions.Nature communications · 2018Article
- Low-input Capture-C: A Chromosome Conformation Capture Assay to Analyze Chromatin Architecture in Small Numbers of Cells.Bio-protocol · 2017Article
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Authors and funding
5 authors.
Funding
Abstract
Chromosome conformation capture (3C) techniques are crucial to understanding tissue-specific regulation of gene expression, but current methods generally require large numbers of cells. This hampers the investigation of chromatin architecture in rare cell populations. We present a new low-input Capture-C approach that can generate high-quality 3C interaction profiles from 10 000-20 000 cells, depending on the resolution used for analysis. We also present a PCR-free, sequencing-free 3C technique based on NanoString technology called C-String. By comparing C-String and Capture-C interaction profiles we show that the latter are not skewed by PCR amplification. Furthermore, we demonstrate that chromatin interactions detected by Capture-C do not depend on the degree of cross-linking by performing experiments with varying formaldehyde concentrations.
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Registered trials
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