|
| Status |
Public on Sep 15, 2020 |
| Title |
fetal cord tissue, S0508 |
| Sample type |
genomic |
| |
|
| Source name |
cord tissue
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: fetal cord tissue
art treatment status (0 = spontaneous; 1 = assisted reproduction): 0
maternal age at delivery (years): 35.12
maternal ethnicity (0 = chinese; 1 = indian; 2 = malay): 2
child sex (male = 0; female = 1): 0
pre-pregnancy bmi (kg/m^2): 24.6
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Prior to purification, 250 mg crushed cord tissue was enzymatically digested with hyaluronidase (~2.7U in 250 µl PBS) for 30 minutes at 37 C, mixed with 250 µl TNES lysis buffer, transferred to gentleMACS M Tubes (Miltenyi 130-093-236) for 1-minute homogenization followed by overnight treatment with 200 µg Proteinase K at 55 C. QIASymphony SP was used for automated purification of (buffy coat/cord tissue) DNA in combination with QIASymphony DSP DNA Midi Kit (Qiagen #937255) and DNA was bisulfite converted using the EZ DNA Methylation Kit™ (Zymo Research).
|
| Label |
Cy3, Cy5
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
Standard Illumina Protocol
|
| Scan protocol |
Standard Illumina Protocol
|
| Data processing |
GenomeStudio; R/Rstudio
green (RAW_ID_Grn.idat) and red (RAW_ID_Red.idat) channels provided
[value definition] chip position, DNA extraction, and bisulfite conversion batch, and celltype-adjusted residuals provided
|
| |
|
| Submission date |
Sep 14, 2020 |
| Last update date |
Sep 15, 2020 |
| Contact name |
Jonathan Yinhao Huang |
| E-mail(s) |
jonathan_huang@sics.a-star.edu.sg
|
| Phone |
+65 6407 0688
|
| Organization name |
Singapore Institute for Clinical Sciences
|
| Street address |
30 Medical Drive
|
| City |
Singapore |
| State/province |
« choose one » |
| ZIP/Postal code |
117609 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE157896 |
Smaller stature in childhood following assisted reproductive technologies (ART) is not explained by parental or gestational factors, early childhood environment, or fetal DNA methylation [GUSTO_cord_tissue] |
| GSE158064 |
Smaller stature in childhood following assisted reproductive technologies (ART) is not explained by parental or gestational factors, early childhood environment, or fetal DNA methylation |
|
