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Series GSE87604 Query DataSets for GSE87604
Status Public on Jul 12, 2017
Title The embryo-larval and adult parts of the zebrafish major alpha/beta-globin gene locus are functionally and structurally independent
Organism Danio rerio
Experiment type Other
Summary We have demonstrated that, in developing Danio rerio, the embryo-larval and adult subloci of the major globin locus acquire stage-specific hyperacetylation of histone H3 and that H3 hyperacetylation profiles differ significantly between the embryo-larval sublocus (high level of acetylation within gene bodies but not in intergenic regions) and adult sublocus (extended domains of H3 acetylation covering both gene bodies and intergenic regions). The spatial organization of the two subloci is also found to be different. Whereas the adult sublocus is organized into a relatively compact contact domain, the embryo-larval sublocus has a rather low density of spatial contacts. Finally, we have demonstrated that the conserved upstream enhancer of the locus establishes spatial contacts with transcribed adult genes, but not with transcribed embryo-larval genes, and that the embryo-larval and adult subloci of the major globin gene locus are separated by an insulator colocalizing with a CTCF-binding site.
 
Overall design 5C analysis of the major alpha/beta-globin gene domain in erythroid cells of Danio rerio
 
Contributor(s) Kovina AP, Galitsyna AA
Citation(s) 28333290
Submission date Oct 04, 2016
Last update date Jul 28, 2023
Contact name Aleksandra Galitsyna
E-mail(s) agalitzina@gmail.com
Organization name Massachusetts Institute of Technology
Department IMES
Lab Leonid Mirny lab
Street address 77 Massachusetts Avenue
City Cambridge
State/province Massachusetts
ZIP/Postal code 02138
Country USA
 
Platforms (1)
GPL14875 Illumina HiSeq 2000 (Danio rerio)
Samples (4)
GSM2335034 adult_rep1
GSM2335035 adult_rep2
GSM2335036 larvae_rep1
Relations
BioProject PRJNA345366
SRA SRP090815

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE87604_RAW.tar 30.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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