|
| Status |
Public on Oct 26, 2021 |
| Title |
Methylome capture of HG003 using TruSeq [TruSeq_HG003_LAB01_REP02] |
| Sample type |
SRA |
| |
|
| Source name |
Cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HG003
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Illumina TruSeq DNA Methylation
DNA (gDNA) was purchased from the Coriell Institute for Medical Research
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Whole Genome Bisulfite
|
| Data processing |
Base-calling software: RTA v3.4.4
Adapter trimming: fastp v0.20.1
Alignment: bwa-meth v02.1
Sorting and indexing: sambamba
Duplicate marking: Picard MarkDuplicates v2.10.10-SNAPSHOT
Methylation calling: MethylDackel v0.3.0-3-g084d926
Genome_build: genome build: GRCh38
Supplementary_files_format_and_content: Bedgraph
|
| |
|
| Submission date |
Oct 22, 2021 |
| Last update date |
Oct 26, 2021 |
| Contact name |
Jessica Nordlund |
| Organization name |
Uppsala University
|
| Department |
Department of Medical Sciences
|
| Lab |
Molecular Precision Medicine
|
| Street address |
Box 1432, BMC
|
| City |
Uppsala |
| ZIP/Postal code |
SE-75144 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE186383 |
The SEQC2 epigenomics quality control (EpiQC) study |
|
| Relations |
| BioSample |
SAMN16727314 |
| SRA |
SRX9500429 |
| SRA |
SRX9500427 |
| SRA |
SRX9500426 |
