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Series GSE103006 Query DataSets for GSE103006
Status Public on Dec 10, 2018
Title Variants of DNMT3A cause transcript-specific DNA methylation changes
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary The de novo DNA methyltransferase 3A (DNMT3A) plays a pivotal role in hematopoietic differentiation. In this study, we followed the hypothesis that alternative splicing of DNMT3A has characteristic epigenetic and functional sequels. Various transcripts of DNMT3A were either knocked down or overexpressed in human hematopoietic stem and progenitor cells resulting in complementary and transcript-specific DNA methylation (DNAm) and gene expression changes. Our results demonstrate that different splice variants of DNMT3A have distinct epigenetic and functional sequels.
 
Overall design Six biological replicas of cord blood-derived CD34+ hematopoietic stem and progenitor cells (HSPCs; #1-6) were isolated for the knockdown (KD; #1-3) and the overexpression (OE; #4-6) of DNMT3A transcripts. HSPCs were lentivirally infected with either shRNA or overexpression vectors 1 day after isolation. Control HSPCs were infected with a scrambled or empty vector. Genomic DNA was isolated at day 12 after infection, bisulfite converted and hybridized to the Illumina Infinium 450k Human Methylation Beadchip.
 
Contributor(s) Božić T, Frobel J, Raic A, Ticconi F, Kuo C, Heilmann-Heimbach S, Goecke TW, Zenke M, Jost E, Costa IG, Wagner W
Citation(s) 30582132
Submission date Aug 23, 2017
Last update date Mar 22, 2019
Contact name Wolfgang Wagner
E-mail(s) wwagner@ukaachen.de
Phone +49 241 8088611
Organization name RWTH Aachen University
Department Helmholtz Institute for Biomedical Engineering
Lab Stem Cell Biology and Cellular Engineering
Street address Pauwelsstrasse 20
City Aachen
ZIP/Postal code 52074
Country Germany
 
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (24)
GSM2752440 HSC_1 KD Tr.1+3_methylation
GSM2752441 HSC_1 KD Tr.2_methylation
GSM2752442 HSC_1 KD Tr.4_methylation
This SubSeries is part of SuperSeries:
GSE103008 Variants of DNMT3A cause transcript-specific DNA methylation and gene expression changes
Relations
BioProject PRJNA399747

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
GSE103006_RAW.tar 379.7 Mb (http)(custom) TAR (of IDAT)
GSE103006_unmethylated_and_methylated_signal.txt.gz 50.8 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Raw data are available on Series record

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