ArticleGenome research2006
Identifying gene regulatory elements by genomic microarray mapping of DNaseI hypersensitive sites.
Article in Genome research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 34 citations in OpenAlex.
- Alteration of CTCF-associated chromatin neighborhood inhibits TAL1-driven oncogenic transcription program and leukemogenesis.Nucleic acids research · 2020Article
- Encounters across networks: Windows into principles of genomic regulation.Marine genomics · 2019Article
- Dr. Jekyll and Mr. Hyde: MAP17's up-regulation, a crosspoint in cancer and inflammatory diseases.Molecular cancer · 2018Review
- Aberrant TAL1 activation is mediated by an interchromosomal interaction in human T-cell acute lymphoblastic leukemia.Leukemia · 2014Article
- Characterization of constitutive CTCF/cohesin loci: a possible role in establishing topological domains in mammalian genomes.BMC genomics · 2013Article
- Measuring Arabidopsis chromatin accessibility using DNase I-polymerase chain reaction and DNase I-chip assays.Plant physiology · 2013Article
- Understanding transcriptional regulation by integrative analysis of transcription factor binding data.Genome research · 2012Article
- Distinct regulation of c-myb gene expression by HoxA9, Meis1 and Pbx proteins in normal hematopoietic progenitors and transformed myeloid cells.Blood cancer journal · 2012Article
- Itga2b regulation at the onset of definitive hematopoiesis and commitment to differentiation.PloS one · 2012Article
- Correlation between DNase I hypersensitive site distribution and gene expression in HeLa S3 cells.PloS one · 2012Article
- Article
- Two distinct auto-regulatory loops operate at the PU.1 locus in B cells and myeloid cells.Blood · 2011Article
- Ligand-dependent dynamics of retinoic acid receptor binding during early neurogenesis.Genome biology · 2011Article
- Article
- Transcriptional regulation of Elf-1: locus-wide analysis reveals four distinct promoters, a tissue-specific enhancer, control by PU.1 and the importance of Elf-1 downregulation for erythroid maturation.Nucleic acids research · 2010Article
- Sequence composition similarities with the 7SL RNA are highly predictive of functional genomic features.Nucleic acids research · 2010Article
- Genomic approaches uncover increasing complexities in the regulatory landscape at the human SCL (TAL1) locus.PloS one · 2010Article
- Effects of 15-deoxy-delta12,14-prostaglandin J2 (15d-PGJ2) and rosiglitazone on human gammadelta2 T cells.PloS one · 2009Article
- Rapid high-throughput analysis of DNaseI hypersensitive sites using a modified Multiplex Ligation-dependent Probe Amplification approach.BMC genomics · 2009Article
- DNA methylation-histone modification relationships across the desmin locus in human primary cells.BMC molecular biology · 2009Article
Corrections and comments
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Authors and funding
14 authors at 2 institutions in 1 country.
Funding
Abstract
The identification of cis-regulatory elements is central to understanding gene transcription. Hypersensitivity of cis-regulatory elements to digestion with DNaseI remains the gold-standard approach to locating such elements. Traditional methods used to identify DNaseI hypersensitive sites are cumbersome and can only be applied to short stretches of DNA at defined locations. Here we report the development of a novel genomic array-based approach to DNaseI hypersensitive site mapping (ADHM) that permits precise, large-scale identification of such sites from as few as 5 million cells. Using ADHM we identified all previously recognized hematopoietic regulatory elements across 200 kb of the mouse T-cell acute lymphocytic leukemia-1 (Tal1) locus, and, in addition, identified two novel elements within the locus, which show transcriptional regulatory activity. We further validated the ADHM protocol by mapping the DNaseI hypersensitive sites across 250 kb of the human TAL1 locus in CD34+ primary stem/progenitor cells and K562 cells and by mapping the previously known DNaseI hypersensitive sites across 240 kb of the human alpha-globin locus in K562 cells. ADHM provides a powerful approach to identifying DNaseI hypersensitive sites across large genomic regions.
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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.