ArticleBriefings in functional genomics2015
In vivo formaldehyde cross-linking: it is time for black box analysis.
Article in Briefings in functional genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
38 citing papers in PubMed.
- CAD-C: An engineered nuclease enables repair-freebioRxiv : the preprint server for biology · 2026Article
- A universal polymer signature in Hi-C resolves cohesin loop density and supports monomeric extrusion.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Protein-Centric Mapping of RNA-DNA Interactions with RedChIP.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Revisiting models of enhancer-promoter communication in gene regulation.Genome research · 2025Review
- A continuum of zinc finger transcription factor retention on native chromatin underlies dynamic genome organization.Molecular systems biology · 2024Article
- Induced proximity labeling and editing for epigenetic research.Cell chemical biology · 2024Review
- Transcription decouples estrogen-dependent changes in enhancer-promoter contact frequencies and spatial proximity.PLoS genetics · 2024Article
- Transcriptional condensates: a blessing or a curse for gene regulation?Communications biology · 2024Review
- Fluid preservation in brain banking: a review.Free neuropathology · 2024Article
- Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C.Nature methods · 2023Article
- Integrative approaches to study enhancer-promoter communication.Current opinion in genetics & development · 2023Review
- Rapid Downregulation of H3K4me3 Binding to Immunoregulatory Genes in Altered Gravity in Primary Human M1 Macrophages.International journal of molecular sciences · 2022Article
- Article
- In-Cell Labeling and Mass Spectrometry for Systems-Level Structural Biology.Chemical reviews · 2022Review
- Hotspots of single-strand DNA "breakome" are enriched at transcriptional start sites of genes.Frontiers in molecular biosciences · 2022Article
- Understanding 3D genome organization by multidisciplinary methods.Nature reviews. Molecular cell biology · 2021Review
- Non-coding RNAs in chromatin folding and nuclear organization.Cellular and molecular life sciences : CMLS · 2021Review
- Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin.Nature methods · 2021Article
- FAX-RIC enables robust profiling of dynamic RNP complex formation in multicellular organisms in vivo.Nucleic acids research · 2021Article
- Investigation of the Basic Steps in the Chromosome Conformation Capture Procedure.Frontiers in genetics · 2021Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Formaldehyde cross-linking is an important component of many technologies, including chromatin immunoprecipitation and chromosome conformation capture. The procedure remains empirical and poorly characterized, however, despite a long history of its use in research. Little is known about the specificity of in vivo cross-linking, its efficiency and chemical adducts induced by the procedure. It is time to search this black box.
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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.