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Series GSE152648 Query DataSets for GSE152648
Status Public on Jun 18, 2020
Title Identification of ventricle-specific methylation patterns in cell-free DNA and correlation with myocardial apoptosis and acute cellular rejection after heart transplantation
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary Increased levels of donor-derived cell-free DNA (dd-cfDNA) in recipient plasma have been associated with acute cellular rejection (ACR) after heart transplantation. DNA sequence differences have been used to distinguish between donor and recipient cfDNA but epigenetic differences could also potentially identify dd-cfDNA. This study aimed to assess the feasibility of using ventricle-specific methylation patterns in human cfDNA as an alternative biomarker for ACR in cardiac transplantation.
Overall design Serial samples of plasma (n=24) were collected from adult heart transplant recipients undergoing routine endomyocardial biopsy (EMB) for post- transplant rejection surveillance. Publicly available methylomes and genomic DNA from various human tissues were leveraged to identify ventricle-specific differentially methylated regions of DNA (DMRs) detectable in isolated plasma cfDNA. Correlation of these novel DMRs with pathology-graded ACR was then validated in serial plasma samples.
Contributor(s) Pattar S, Aleinati M, Iqbal F, Madhu A, Blais S, Wang X, Dallaire F, Wang Y, Isaac D, Fine N, Greenway SC
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Submission date Jun 17, 2020
Last update date Jun 20, 2020
Contact name Steven Greenway
Organization name University of Calgary
Street address 2500 University Dr NW
City Calgary
ZIP/Postal code T2N 4N1
Country Canada
Platforms (1)
GPL15520 Illumina MiSeq (Homo sapiens)
Samples (38)
GSM4622839 Patient 1002-11
GSM4622840 Patient 1002-12
GSM4622841 Patient 1002-13
BioProject PRJNA639958
SRA SRP267626

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Supplementary file Size Download File type/resource
GSE152648_RAW.tar 910.0 Kb (http)(custom) TAR (of CSV)
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Raw data are available in SRA
Processed data provided as supplementary file

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