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Series GSE68922 Query DataSets for GSE68922
Status Public on Feb 09, 2017
Title ∆DNMT3B4-del Contributes to Aberrant DNA Methylation Patterns in Lung Tumorigenesis
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary Aberrant DNA methylation is a hallmark of cancer but mechanisms contributing to the abnormality remain elusive. Here, we report that most of lung cancer cell lines tested expressed predominantly ∆DNMT3B-del whereas normal bronchial epithelial cells expressed equal quantities of ∆DNMT3B and ∆DNMT3B-del. We demonstrate biological impacts of ∆DNMT3B4-del, a ∆DNMT3B-del isoform, in a transgenic mouse model. Expression of ∆DNMT3B4-del in the mouse lungs resulted in an increased global DNA hypomethylation, focal DNA hypermethylation, epithelial hyperplastia and tumor formation when challenged with a tobacco carcinogen. In patients with non-small cell lung cancer, 83% of the primary tumors expressed predominantly ∆DNMT3B-del. Our results demonstrate ∆DNMT3B4-del as a critical factor in developing aberrant DNA methylation during lung tumorigenesis.
Overall design Methyl binding domain protein-enriched genome sequencing (MBD-Seq) approach was employed to analyze methylated DNA regions in the genomic DNA samples. We constructed 6 libraries of genomic DNA samples from mouse lung tissues including 3 from wild-type mice and 3 from the transgenic mice. Each group (wild type or transgenic), therefore, consisted of three biological replicates.
Contributor(s) Ma MZ, Lin L, Carrillo J, Bhutani M, Pathak A, Ren H, Song J, Mao L
Citation(s) 26629529
Submission date May 15, 2015
Last update date May 15, 2019
Contact name Jose Adrian Carrillo
Organization name University of Maryland
Department Department of Animal and Avian Sciences
Lab Song's lab
Street address 1413 Animal Sciences Center
City College Park
State/province MD
ZIP/Postal code 20742-2311
Country USA
Platforms (1)
GPL9185 Illumina Genome Analyzer (Mus musculus)
Samples (6)
GSM1686523 Transgenic1
GSM1686524 Transgenic2
GSM1686525 Transgenic3
BioProject PRJNA284114
SRA SRP058379

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Supplementary file Size Download File type/resource
GSE68922_Anno.CpGisl.txt.gz 15.5 Kb (ftp)(http) TXT
GSE68922_Anno_TSS.txt.gz 19.1 Kb (ftp)(http) TXT
GSE68922_RAW.tar 7.1 Mb (http)(custom) TAR (of BED)
GSE68922_Suppl_Table2_DMRs.txt.gz 25.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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