|
| Status |
Public on Dec 31, 2023 |
| Title |
Non-diabetic Male control rep4 |
| Sample type |
SRA |
| |
|
| Source name |
white blood cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: white blood cells
Sex: Male
kidney complication: control
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
purgene blood kit genomic DNA extraction
Methyl Miner enrichment
Illumina ChIP-seq library prep kit
|
| |
|
| Library strategy |
MBD-Seq |
| Library source |
genomic |
| Library selection |
MBD2 protein methyl-CpG binding domain |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
Non-diabetic_Male_control_4
FinnD_Male_CpG_metamacs_Q20_COUNT.mx.txt
|
| Data processing |
Basecalling with Illumina pipeline software (SCS v2.8 / RTA v1.8)
151 bp reads were checked for quality using FastQC.
reads mapped with BWA-MEM, hg19
MACs peak-calling on reads with mapQ>=20
bedtools mutlicov for count matrix generation
Supplementary_files_format_and_content: Matrix of contig CpG methylation enrichment counts
|
| |
|
| Submission date |
Jan 20, 2016 |
| Last update date |
Dec 31, 2023 |
| Contact name |
Assam El-Osta |
| Organization name |
Baker Heart and Diabetes Institute
|
| Lab |
Human Epigenetics
|
| Street address |
75 Commercial Road
|
| City |
Melbourne |
| ZIP/Postal code |
3004 |
| Country |
Australia |
| |
|
| Platform ID |
GPL10999 |
| Series (1) |
| GSE77011 |
Mapping the human diabetic methylome |
|
| Relations |
| BioSample |
SAMN04429981 |
| SRA |
SRX1538037 |
