|
| Status |
Public on Aug 30, 2024 |
| Title |
sciMETv3, brain, 4 donors, Illumina NovaSeq |
| Sample type |
SRA |
| |
|
| Source name |
Brain BA46
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Brain BA46
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei were extracted using nuclei isolation buffer and gentle dounce homogenization
sciMETv3 libraries were prepared using 3-level single-cell combinatorial indexing workflows
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Cell-level methylation calls and amethyst analysis object for Illumina-sequenced sciMETv3 dataset
|
| Data processing |
Reads were processed using Premethyst and aligned to hg38
Methylation calls were analyzed using Amethyst
Assembly: hg38
Supplementary files format and content: Methylation calls in h5 format or a tar file with multiple h5 files included
Supplementary files format and content: Methylaiton metadata in amethyst object format, integrated with sciMETv3-only dataset
|
| |
|
| Submission date |
Jul 31, 2024 |
| Last update date |
Aug 30, 2024 |
| Contact name |
Andrew Adey |
| E-mail(s) |
adey@ohsu.edu
|
| Organization name |
Oregon Health & Science University
|
| Department |
MMG
|
| Lab |
Adey Lab
|
| Street address |
3181 S.W. Sam Jackson Park Rd, RHH, L103
|
| City |
Portland |
| State/province |
OR |
| ZIP/Postal code |
97239-3098 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE273592 |
sciMETv3 for atlas-scale single-cell DNA methylation analysis |
|
| Relations |
| BioSample |
SAMN42593003 |
| SRA |
SRX25280354 |
| SRA |
SRX25280561 |
| SRA |
SRX25280273 |
| SRA |
SRX25280350 |
