Affiliation: National Institutes of Health
Guo X, Dean A. CRISPR/Cas9 offers a new tool for studying the role of chromatin architecture in disease pathogenesis. Genome Biol. 2018;19:185 pubmed publisher
..A recent study used CRISPR/Cas9 to reveal long-range looping between disease-related genes and their regulatory elements that is mediated by the CCCTC-binding factor (CTCF) in prostate cancer. ..
Ivaldi M, Diaz L, Chakalova L, Lee J, Krivega I, Dean A. Fetal ?-globin genes are regulated by the BGLT3 long non-coding RNA locus. Blood. 2018;: pubmed publisher
..These data reveal that BGLT3 regulates ?-globin transcription in a developmental stage-specific fashion together with the LCR by serving as a separate means to increase RNA Pol II density at the ?-globin promoters. ..
Krivega I, Dean A. Chromosome togetherness at the onset of ESC differentiation. Cell Stem Cell. 2015;16:213-4 pubmed publisher
..In this issue, Hogan etÂ al. (2015) examine the earliest steps between pluripotency and lineage commitment in ESCs and find a critical role for transient pairing of Oct4 alleles in exiting the pluripotent state. ..
Dean A. In the loop: long range chromatin interactions and gene regulation. Brief Funct Genomics. 2011;10:3-10 pubmed publisher
..This review will concentrate on examples where a functional role and a mechanistic understanding has been explored for loops formed between genes and their regulatory elements or among the elements themselves. ..
Plank J, Dean A. Enhancer function: mechanistic and genome-wide insights come together. Mol Cell. 2014;55:5-14 pubmed publisher
Lee J, Krivega I, Dale R, Dean A. The LDB1 Complex Co-opts CTCF for Erythroid Lineage-Specific Long-Range Enhancer Interactions. Cell Rep. 2017;19:2490-2502 pubmed publisher
..Our results provide a mechanism by which long-range interactions of architectural protein CTCF can be tailored to achieve a tissue-restricted pattern of chromatin loops and gene expression. ..
Krivega I, Dean A. Chromatin Immunoprecipitation (ChIP) with Erythroid Samples. Methods Mol Biol. 2018;1698:229-236 pubmed publisher
..Here, we present methodology for these approaches that are widely applicable to erythroid cell lines, progenitor cells, and tissues. ..
Krivega I, Dean A. Chromosome Conformation Capture (3C and Higher) with Erythroid Samples. Methods Mol Biol. 2018;1698:237-243 pubmed publisher
..Here, we present methodology suitable for 3C experiments that can also be applied as the basis for related 4C, 5C, and Hi-C approaches. These procedures are widely applicable to erythroid cell lines, progenitor cells, and tissues. ..