GEO DataSets

(Submitter supplied) Comparison of DNA methylation levels of chromosome 18 between placentas and blood cells of pregnant women

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL4913

11 Samples

Download data: BAR, CEL, TXT

(Submitter supplied) Massively parallel sequencing of maternal cell-free DNA (cfDNA) is widely used to test fetal genetic abnormalities in non-invasive prenatal testing (NIPT). However, sequencing-based approaches are still of high cost. Building upon previous knowledge that placenta, the main source of fetal circulating DNA, is hypomethylated in comparison to maternal tissue counterparts of cfDNA, we propose that targeting either unmodified or 5-hydroxymethylated CG sites specifically enriches fetal genetic material and reduces numbers of required analytical sequencing reads thereby decreasing cost of a test.

Organism:

Homo sapiens

Type:

Other; Methylation profiling by high throughput sequencing

Platform:

GPL17303

42 Samples

Download data: TXT

(Submitter supplied) Noninvasive prenatal diagnosis currently used does not achieve desirable levels of sensitivity and specificity. Recently, fetal methylated DNA biomarkers in maternal whole blood have been explored for noninvasive prenatal detection. However, such efforts cover only chromosomal aneuploidy; fetal methylated DNA biomarkers for detecting single-gene disease remain to be discovered. To address this issue, we systematically screened significantly hypermethylated genes in fetal tissues compared with maternal blood for noninvasive prenatal diagnosis of various inherited diseases. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL14835

8 Samples

Download data: TXT

(Submitter supplied) Genome wide DNA methylation profiling of normal and trisomic placentas, and maternal blood cell DNA. The aim of this study was to search for methylation differences between maternal and fetal(placenta) cell free DNA, and between normal and trisomic placentas for an optimized methylation based noninvasive prenatal diagnosis of fetal chromosomal aberations. The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 450,000 CpGs in DNA samples from Chorionic villus samples(CVS) and DNA samples from whole blood. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

60 Samples

Download data: IDAT

(Submitter supplied) Genome wide DNA methylation profiling of fetal DNA-methylation levels in 47 chorionic villi (CVS) and 16 amniotic cell (AC) samples. The Illumina Infinium 27k Human DNA methylation Beadchip was used to determine DNA methylation profiles across approximately 27,578 CpGs in fetal samples.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL8490

63 Samples

Download data: TXT

(Submitter supplied) The presence of an extra whole or part of chromosome 21 in people with Down syndrome (DS) is associated with multiple neurological changes, including pathological aging that often meets the criteria for Alzheimer’s Disease (AD). While the mechanism underlying these changes is unknown, it has been hypothesized that the presence of the amyloid precursor protein (APP) on chromosome 21 may contribute to the phenotype. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

20 Samples

Download data: TXT

(Submitter supplied) We report the application of methylated DNA immunoprecipitation followed by next-generation sequencing to trisomy 8 AML. Through a global study and quantifying the methylation signals, we demonstrated a characteristic DNA methylation distribution for trisomy 8 indicating the impact of the hypermethylation of the extrachromosome 8 on suppressing the signals on the rest of the chromosomes.

Organism:

Homo sapiens

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL10999

3 Samples

Download data: GFF, WIG

(Submitter supplied) The DNA methylation profiles in normal and abnormal fetal development were investigated using Illumina GoldenGate Methylation Cancer Panel I. DNA methylation status of 1505 CpG dinucleotides located in the regulatory regions of 807 genes was measured in 5 somatic tissues (brain, kidney, lung, muscle and skin) from second-trimester elective terminations of eight normal, five trisomy 21 and four trisomy 18 fetuses.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL9183

60 Samples

Download data: TXT

(Submitter supplied) Alterations in genomic imprinting are posited as a mechanism for effects of assisted reproduction technologies (ART) and in vitro fertilization (IVF) on long term offspring phenotype. Our previous work has investigated the role of fetal cord tissue DNA methylation in mediating these relationships (Huang, et al. 2021. DOI: 10.1038/s41467-021-25899-4). To study the extent to which fetal-derived placental DNA methylation may mediate these relationships, we conducted a nested cohort study within the Growing Up in Singapore Towards healthy Outcomes (GUSTO) prospective parent-offspring study. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

391 Samples

Download data: IDAT, TXT

(Submitter supplied) we analyzed the transcriptomics of single cell of amniotic fluid both from normal and trisomy 18 individuals by using 10x Genomics.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

5 Samples

Download data: XLS