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Series GSE109538 Query DataSets for GSE109538
Status Public on Jul 18, 2019
Title Determining gestational age using genome methylation profile
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary Background: Gestational age determination by traditional tools (last menstrual period, ultrasonography measurements and Ballard Maturational Assessment in newborns) have major limitations and therefore there is a need to find molecular marker approaches that can be used to determine the accurate gestational age of the newborn. Methods: We performed RRBS (Reduced Representation Bisulfite Sequencing) on 41 cord blood and matching placenta samples. Results: We identified a set of 316 Differentially Methylated Regions (DMRs) that undergo demethylation in late gestational age in cord blood cells and can predict the gestational age (r = -0.7, p value<0.0001). Once the set of 411 DMRs that undergo de novo methylation in late gestational age was used in combination with the first set it generated a more accurate clock (r=0.77, p value=1.87E-05). Conclusion: Taken together, this study demonstrates that DNA methylation can accurately predict gestational age. The clinical use of this predictor should be further investigated.
 
Overall design Cord blood and placenta samples were collected from 48 pregnancies that met the enrolment criteria. Samples with low quality DNA were removed. The methylation profile was determined for 40 whole blood samples and 41 placenta samples.
 
Contributor(s) Michaeli TF, Spiro A, Sabag O, Karavani G, Yagel S, Cedar H, Bergman Y, Gielchinsky Y
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Submission date Jan 24, 2018
Last update date Jul 19, 2019
Contact name Tal Michaeli
Organization name The Hebrew University
Street address Ein Kerem Campus
City Jerusalem
ZIP/Postal code 9112001
Country Israel
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (81)
GSM2945949 Placenta 1
GSM2945950 Placenta 2
GSM2945951 Placenta 3
Relations
BioProject PRJNA431353
SRA SRP131296

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Supplementary file Size Download File type/resource
GSE109538_100bpTiles_Tiles_Cov10_All.bed.gz 109.5 Mb (ftp)(http) BED
GSE109538_Cov10_Tiles_OldWBC_More_Meth_0.50.xlsx.gz 203.8 Kb (ftp)(http) XLSX
GSE109538_Cov10_Tiles_YoungPL_More_Meth_0.50.xlsx.gz 127.4 Kb (ftp)(http) XLSX
GSE109538_Cov10_Tiles_YoungWBC_More_Meth_0.50.xlsx.gz 170.8 Kb (ftp)(http) XLSX
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