ArticleNucleic acids research2006
A reliable method to display authentic DNase I hypersensitive sites at long-ranges in single-copy genes from large genomes.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- A Review of PRDM13 Transcriptional Regulation in Vertebrate Retinal Development and Disease.Investigative ophthalmology & visual science · 2026Review
- Integrative profiling of gene expression and chromatin accessibility elucidates specific transcriptional networks in porcine neutrophils.Frontiers in genetics · 2023Article
- Perforin: An intriguing protein in allograft rejection immunology (Review).Experimental and therapeutic medicine · 2022Review
- Telomere damage induces internal loops that generate telomeric circles.Nature communications · 2020Article
- Early programming of CD8Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Article
- Super-resolution fluorescence imaging of telomeres reveals TRF2-dependent T-loop formation.Cell · 2013Article
- High-resolution nucleosome mapping of targeted regions using BAC-based enrichment.Nucleic acids research · 2013Article
- Assaying chromatin structure and remodeling by restriction enzyme accessibility.Methods in molecular biology (Clifton, N.J.) · 2012Article
- The transcriptional control of the perforin locus.Immunological reviews · 2010Review
- Interleukin-2 and inflammation induce distinct transcriptional programs that promote the differentiation of effector cytolytic T cells.Immunity · 2010Article
- The serum response factor and a putative novel transcription factor regulate expression of the immediate-early gene Arc/Arg3.1 in neurons.The Journal of neuroscience : the official journal of the Society for Neuroscience · 2009Article
- Runx3 and T-box proteins cooperate to establish the transcriptional program of effector CTLs.The Journal of experimental medicine · 2009Article
- Genomics and the immune system.Immunology · 2008Review
- Article
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Authors and funding
2 authors.
Funding
Abstract
The study of eukaryotic gene transcription depends on methods to discover distal cis-acting control sequences. Comparative bioinformatics is one powerful strategy to reveal these domains, but still requires conventional wet-bench techniques to elucidate their specificity and function. The DNase I hypersensitivity assay (DHA) is also a method to identify regulatory domains, but can also suggest their function. Technically however, the classical DHA is constrained to mapping gene loci in small increments of approximately 20 kb. This limitation hinders efficient and comprehensive analysis of distal gene regions. Here, we report an improved method termed mega-DHA that extends the range of existing DHAs to facilitate assaying intervals that approach 100 kb. We demonstrate its feasibility for efficient analysis of single-copy genes within a large and complex genome by assaying 230 kb of the human ADAMTS14-perforin-paladin gene cluster in four experiments. The results identify distinct networks of regulatory domains specific to expression of perforin and its two neighboring genes.
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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.