|
| Status |
Public on Aug 27, 2012 |
| Title |
genomic DNA from sample F1 follow-up (Bisulfite-Seq) |
| Sample type |
SRA |
| |
|
| Source name |
F1
|
| Organism |
Homo sapiens |
| Characteristics |
sample id: F1
tissue: whole blood
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
genomic DNA was extracted from dried blood spot samples using the GenSolve kit as per manufacturers instructures. DNA was extracted from other samples using the Qiagen DNeasy kit.
Bisulfite-seq libraries were prepared
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Description |
normal blood sample
|
| Data processing |
Standard Illumina software was used for processing and basecalling
Read pairs were aligned to the GRCh37 genome using BWA 0.5.9
Read pairs were filtered (quality score >= 10) and length-normalized within each group (DBS and followup)
Read pairs were counted in 500bp windows centered on the probes from the Illumina HumanMethylation450K array
Genome_build: GRCh37/hg19
Supplementary_files_format_and_content: Tab-delimited files countaining read counts
Genome Build:
Followup-F1.counts.txt: GRCh37/hg19
|
| |
|
| Submission date |
May 22, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Thomas A Down |
| E-mail(s) |
thomas.down@gurdon.cam.ac.uk
|
| Organization name |
University of Cambridge
|
| Department |
WT/CRUK Gurdon Institute
|
| Street address |
Tennis Court Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 1QN |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL10999 |
| Series (2) |
| GSE38127 |
Guthrie card methylomics identifies temporally stable epialleles that are present at birth in humans (Bisulfite-Seq) |
| GSE38128 |
Guthrie card methylomics identifies temporally stable epialleles that are present at birth in humans |
|
| Relations |
| SRA |
SRX148968 |
| BioSample |
SAMN00997693 |
