|
| Status |
Public on Sep 12, 2024 |
| Title |
Normal liver (paired to HB15) |
| Sample type |
SRA |
| |
|
| Source name |
Hepatoblastoma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Hepatoblastoma
Sex: Male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from FFPE sections according to the manufacturer's specifications (10x Visium)
Libraries were constructed according to the manufacturer's specifications (10x Visium)
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
FFPE Spatial transcriptomic sequencing
|
| Data processing |
Data processing was performed using Space Ranger software (10x Genomics)
Assembly: GRCh38 3.0.0
Supplementary files format and content: Tab-separated values files, matrix files, jpg and png flies
Library strategy: Spatial Transcriptomics
|
| |
|
| Submission date |
Dec 12, 2023 |
| Last update date |
Sep 12, 2024 |
| Contact name |
Peng Vijaykumar Wu |
| E-mail(s) |
pengwu@gmail.com
|
| Organization name |
Stanford University School of Medicine
|
| Street address |
265 Campus Dr., Rm G2145
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE249965 |
Spatial transcriptomics of primary human hepatoblastomas |
|
| Relations |
| BioSample |
SAMN38776960 |
| SRA |
SRX22865322 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7968253_NL15_aligned_fiducials.jpg.gz |
1.2 Mb |
(ftp)(http) |
JPG |
| GSM7968253_NL15_barcodes.tsv.gz |
9.9 Kb |
(ftp)(http) |
TSV |
| GSM7968253_NL15_detected_tissue_image.jpg.gz |
660.6 Kb |
(ftp)(http) |
JPG |
| GSM7968253_NL15_features.tsv.gz |
151.6 Kb |
(ftp)(http) |
TSV |
| GSM7968253_NL15_matrix.mtx.gz |
1.6 Mb |
(ftp)(http) |
MTX |
| GSM7968253_NL15_scalefactors_json.json.gz |
170 b |
(ftp)(http) |
JSON |
| GSM7968253_NL15_spatial_enrichment.csv.gz |
705.8 Kb |
(ftp)(http) |
CSV |
| GSM7968253_NL15_tissue_hires_image.png.gz |
3.2 Mb |
(ftp)(http) |
PNG |
| GSM7968253_NL15_tissue_lowres_image.png.gz |
287.0 Kb |
(ftp)(http) |
PNG |
| GSM7968253_NL15_tissue_positions.csv.gz |
66.2 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
