ArticleNature protocols2009
Studying physical chromatin interactions in plants using Chromosome Conformation Capture (3C).
Article in Nature protocols, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
61 citing papers in PubMed, 114 citations in OpenAlex.
- BRANCHED1 acts as a rheostat of Nuclear Factor Y-dependent epigenetic regulation in axillary bud development.Nature communications · 2026Article
- Chromosome-level genome assembly of Siberian kale (Brassica napus subsp. pabularia).Scientific data · 2026Article
- A de novo assembled chromosome-level genome of Ainsliaea gracilis Franch. (Pertyeae, Asteraceae) and its comparative phylogenomics within Asteraceae.BMC plant biology · 2026Article
- Site-specific phosphorylation of LRP regulatesScience advances · 2026Article
- Chromatin remodeling at the C-REPEAT BINDING FACTOR cluster controls growth retardation at low ambient temperature.The Plant cell · 2026Article
- Vegetative to generative1 (Vgt1) is an enhancer affecting flowering time and jasmonate signaling in maize by promoting the expression of Zea mays Related to APETALA 2.7.Plant physiology · 2025Article
- Plants repress ROS1 expression to attenuate heat-induced transposon burst.Nature plants · 2025Article
- Chromosome-level genome assembly of Elaeocarpus petiolatus (Elaeocarpaceae).Scientific data · 2025Article
- Enhancers in Plant Development, Adaptation and Evolution.Plant & cell physiology · 2025Review
- Transgenerational epigenetic inheritance during plant evolution and breeding.Trends in plant science · 2024Review
- A high-quality genome assembly reveals adaptations underlying glossy, wax-coated leaves in the heat-tolerant wild raspberry Rubus leucanthus.DNA research : an international journal for rapid publication of reports on genes and genomes · 2024Article
- Chromosome-level genome assembly of Helwingia omeiensis: the first genome in the family Helwingiaceae.Scientific data · 2024Article
- Efficient purging of deleterious mutations contributes to the survival of a rare conifer.Horticulture research · 2024Article
- RNA-directed DNA methylation mutants reduce histone methylation at the paramutated maize booster1 enhancer.Plant physiology · 2024Article
- A molecular mechanism for embryonic resetting of winter memory and restoration of winter annual growth habit in wheat.Nature plants · 2024Article
- Genome-wide identification analysis in wild-typeFrontiers in genetics · 2024Article
- A High-Quality Reference Genome Assembly ofGenes · 2023Article
- A high-quality chromosome-level Eutrema salsugineum genome, an extremophile plant model.BMC genomics · 2023Article
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1 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene regulation in higher eukaryotes frequently involves physical interactions between genomic sequence elements tens of kilobases apart on the same chromosome but can also entail interactions between different chromosomes. Chromosome Conformation Capture (3C) is a powerful tool to identify such interactions. 3C technology is based on formaldehyde crosslinking of chromatin, followed by restriction digestion and intramolecular ligation. Quantitative detection of ligation products by PCR (qPCR; not discussed in this protocol) provides insight into the interaction frequencies between chromosomal fragments and thereby the spatial organization of a genomic region. Detailed 3C protocols have been published for yeast and mammals. However, these protocols cannot simply be transferred to plant tissues. In this paper, we provide a maize-specific 3C protocol and present a general strategy to systematically optimize the protocol for other plants. Once the technique and appropriate controls are established, the 3C procedure (including qPCR) can be completed in 5-7 d.
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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.