|
| Status |
Public on Apr 02, 2014 |
| Title |
UC Sample 180 |
| Sample type |
RNA |
| |
|
| Source name |
Umbilical cord
|
| Organism |
Homo sapiens |
| Characteristics |
gender: Male
ethnicity: Malay
batch: 2
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
A weighed amount of pulverized umbilical cord tissue was lysed and homogenised via Hyaluronidase solution treatment, additionof TNES lysis buffer and Proteinase K.
|
| Label |
Cy3 and Cy5
|
| Label protocol |
Standard Illumina Infinium HD assay protocol
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Data processing |
Background subtraction was performed in GenomeStudio then data was exported. Probes were filtered for detection p-value <0.05 and NBEADS>3 in R. Data was then loaded into Arraystudio version 6 (Omicsoft). All technical replicates were combined after sample QC. Data were normalised amongst samples using quantile normalization and subjected to Combat to removed batch effect.
|
| |
|
| Submission date |
Jan 03, 2014 |
| Last update date |
Apr 02, 2014 |
| Contact name |
Dennis Wang |
| Organization name |
Singapore Institute for Clinical Sciences
|
| Street address |
30 Medical Drive
|
| City |
Singapore |
| ZIP/Postal code |
117609 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE53816 |
The effect of genotype and in utero environment on inter-individual variation in neonate DNA methylomes (methylomes) |
| GSE54446 |
The effect of genotype and in utero environment on inter-individual variation in neonate DNA methylomes |
|
