|
| Status |
Public on Jan 21, 2014 |
| Title |
MeDIP-seq data_24984 |
| Sample type |
SRA |
| |
|
| Source name |
monozygotic twin pair_MDD case
|
| Organism |
Homo sapiens |
| Characteristics |
twin pair: 6
subject status: major depressive disorder
tissue: whole blood sample
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Whole blood samples were collected from the twins and stored at -80°C in EDTA tubes. DNA was extracted from 2 x 6ml EDTA blood using the Nucleon Genomic DNA Extraction Kit BACC3 and stored at -20°C in TE Buffer.
BGI protocol
|
| |
|
| Library strategy |
MeDIP-Seq |
| Library source |
genomic |
| Library selection |
5-methylcytidine antibody |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
24984
|
| Data processing |
Basecalls performed using CASAVA version 1.4
MeDIP-seq reads were aligned to the hg19 genome assembly using bwa
Genome_build: hg19
bed files were generated from bam files using the bedtools package
Supplementary_files_format_and_content: RPKM files were generated from bed files using the MEDIPS R package
|
| |
|
| Submission date |
Jan 20, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Matthew N Davies |
| Organization name |
King's College London
|
| Department |
Twin Research
|
| Lab |
Twin Research
|
| Street address |
St Thomas' Hospital Campus
|
| City |
London |
| State/province |
Greater London |
| ZIP/Postal code |
SE1 7EH |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL9052 |
| Series (1) |
| GSE54222 |
Hypermethylation in the ZBTB20 gene is associated with major depressive disorder |
|
| Relations |
| BioSample |
SAMN02592871 |
| SRA |
SRX443136 |
