GC-035-05-1A
De-identified Human Immune Atlas donor/sample detail for CancerSCEM 2.0. The record preserves available public metadata while avoiding direct identifiers.
Donor-Level Analysis Results
Matrix-backed CancerSCEM donor analysis for GC-035-05-1A, generated 2026-07-09 12:54:49 +0800.
2,000Cells analyzed
10Clusters
11,532Expressed genes
932.7Mean genes
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| Myeloid_APC | 10 | 0.7463 | 1.7704 | 9 |
| B_plasma | 10 | 0.5549 | 1.3927 | 5 |
| T_NK_cytotoxic | 10 | 0.3886 | 1.2604 | 7 |
| Checkpoint_exhaustion | 10 | 0.0379 | 0.0835 | 8 |
| Endothelial | 10 | 0.0272 | 0.081 | 3 |
| Proliferation | 10 | 0.0257 | 0.0519 | 3 |
| Fibroblast_stroma | 10 | 0.0142 | 0.0617 | 3 |
| Epithelial_tumor | 10 | 0.0035 | 0.0107 | 4 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_8 | 338 | 874.5 | ||
| cluster_10 | 333 | 724 | ||
| cluster_2 | 284 | 788.5 | ||
| cluster_7 | 225 | 1253 | ||
| cluster_6 | 171 | 1324 | ||
| cluster_5 | 160 | 613.5 | ||
| cluster_4 | 135 | 839 | ||
| cluster_1 | 133 | 1440 | ||
| cluster_3 | 131 | 742 | ||
| cluster_9 | 90 | 622 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_6 | 1 | S100A9 | 3.0943 | 4.075 | 0.9942 |
| cluster_1 | 1 | LST1 | 3.0154 | 3.541 | 1 |
| cluster_4 | 1 | GNLY | 2.916 | 3.1872 | 0.8667 |
| cluster_7 | 1 | S100A9 | 2.6153 | 3.5663 | 1 |
| cluster_3 | 1 | CD74 | 2.4554 | 4.6598 | 1 |
| cluster_8 | 1 | GZMA | 1.6716 | 1.8786 | 0.9556 |
| cluster_5 | 1 | S100A8 | 1.4885 | 2.5792 | 0.7875 |
| cluster_10 | 1 | LTB | 1.1664 | 2.0024 | 0.979 |
| cluster_2 | 1 | LTB | 1.1034 | 1.9769 | 0.8697 |
| cluster_9 | 1 | PPBP | 0.888 | 0.9812 | 0.3556 |
| cluster_6 | 2 | S100A8 | 2.9508 | 3.9083 | 0.9825 |
| cluster_1 | 2 | IFITM3 | 2.6854 | 3.1318 | 1 |
| cluster_7 | 2 | S100A8 | 2.5632 | 3.4847 | 1 |
| cluster_3 | 2 | HLA-DRA | 2.2616 | 3.2349 | 1 |
| cluster_4 | 2 | FGFBP2 | 1.5736 | 1.7535 | 0.7852 |
| cluster_8 | 2 | CTSW | 1.5465 | 1.8656 | 0.9645 |
| cluster_10 | 2 | LDHB | 0.972 | 1.6971 | 0.958 |
| cluster_2 | 2 | CD3E | 0.8444 | 1.702 | 0.9085 |
| cluster_5 | 2 | S100A9 | 0.7576 | 1.9422 | 0.7937 |
| cluster_9 | 2 | PF4 | 0.5687 | 0.6163 | 0.3 |
| cluster_1 | 3 | FCER1G | 2.6638 | 3.2612 | 1 |
| cluster_6 | 3 | LYZ | 2.5179 | 3.206 | 0.9942 |
| cluster_7 | 3 | LYZ | 2.2823 | 2.9289 | 1 |
| cluster_3 | 3 | HLA-DPA1 | 1.5206 | 2.5619 | 1 |
| cluster_4 | 3 | CTSW | 1.4615 | 1.9433 | 0.9037 |
| cluster_8 | 3 | CD8B | 1.421 | 1.4838 | 0.7899 |
| cluster_10 | 3 | CD3E | 0.9588 | 1.7767 | 0.979 |
| cluster_2 | 3 | IL7R | 0.8001 | 1.1572 | 0.7113 |
| cluster_5 | 3 | LYZ | 0.6832 | 1.5319 | 0.7688 |
| cluster_9 | 3 | HIST1H2AC | 0.4626 | 0.5658 | 0.3444 |
| cluster_1 | 4 | AIF1 | 2.5641 | 3.223 | 1 |
| cluster_7 | 4 | FCN1 | 1.7943 | 2.4057 | 0.9956 |
| cluster_6 | 4 | VCAN | 1.731 | 2.1359 | 0.9591 |
| cluster_3 | 4 | HLA-DPB1 | 1.4801 | 2.4463 | 1 |
| cluster_4 | 4 | GZMA | 1.4446 | 1.8365 | 0.8667 |
| cluster_8 | 4 | IFITM1 | 1.2427 | 2.4929 | 0.997 |
| cluster_10 | 4 | EEF1B2 | 0.9189 | 2.4861 | 0.985 |
| cluster_2 | 4 | LDHB | 0.7212 | 1.5057 | 0.8873 |
| cluster_5 | 4 | VCAN | 0.6553 | 1.1557 | 0.75 |
| cluster_9 | 4 | GP9 | 0.4458 | 0.4592 | 0.2333 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
GC-035-05-1A
Sample ID
GC-035-05-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Gastric Cancer
Age / Age Group
Pan-cancer Chinese cohort, per-donor ages not in CancerSCEM metadata
Sex
Not reported in public CancerSCEM metadata
Health Status
Gastric Cancer; PBMC
Tissue / Cell Source
PBMC
Modality
scRNA-seq (10X Genomics)
Cell Count
12,259
Analysis Status
Matrix available; UMAP generated by fallback sampled pipeline
UMAP Status
Ready
Metadata / Source Notes
Project ID: GC-035; Cancer type: Gastric Cancer; Source: NCBI (SRA); Accession: PRJNA885255; Country: CHN; Sample type: PBMC; Protocol: 10X Genomics; Matrix: GC-035-05-1A.counts.matrix.tsv.gz (12.77 MB); Matrix integrity: gzip file ended before end-of-stream marker during UMAP generation; redownload required before UMAP can be generated.; Age/sex not reported in public CancerSCEM metadata. Age source: CancerSCEM 2.0 database; 400 samples across 47 cancer types; donor-level age not included in download.csv
Additional Clinical / Source Fields
Supplementary source metadata retained from the migrated manifest where available.
cancer type
Gastric Cancer
cancer type short
GC
library count
1
library sample ids
GC-035-05-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (SRA); accession=PRJNA885255; downloaded 2026-07-06
data accession
PRJNA885255
project id
GC-035
sample type
PBMC
country
CHN
data source
NCBI (SRA)
accession no
PRJNA885255
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix incomplete; redownload required
matrix file name
GC-035-05-1A.counts.matrix.tsv.gz
matrix file size bytes
13385473
matrix file size mb
12.77
umap coordinates url
umap summary url
umap pipeline
Fallback Python normalize_total/log1p/HVG/SVD/UMAP; sampled 3000/12259 cells; generated 2026-07-09
matrix integrity status
Gzip EOF/truncated during UMAP generation