GC-035-04-1A
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-035-04-1A, generated 2026-07-09 12:54:49 +0800.
2,000Cells analyzed
34Clusters
18,833Expressed genes
4057Mean UMI
1454Mean genes
3.714Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| T_NK_cytotoxic | 34 | 0.7487 | 2.0128 | 10 |
| B_plasma | 34 | 0.291 | 2.5221 | 8 |
| Myeloid_APC | 34 | 0.2878 | 1.7546 | 9 |
| Checkpoint_exhaustion | 34 | 0.062 | 0.1973 | 8 |
| Endothelial | 34 | 0.0543 | 0.2823 | 5 |
| Proliferation | 34 | 0.0322 | 0.0724 | 7 |
| Fibroblast_stroma | 34 | 0.0061 | 0.0385 | 3 |
| Epithelial_tumor | 34 | 0.0013 | 0.0128 | 6 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 247 | 3460.6802 | 1610 | 4.9903 |
| cluster_2 | 189 | 4185.7513 | 1452 | 3.9485 |
| cluster_3 | 168 | 4904.1607 | 1937.5 | 4.3214 |
| cluster_4 | 165 | 3570.2545 | 1677 | 3.3977 |
| cluster_5 | 140 | 4159.3286 | 235.5 | 0.2644 |
| cluster_6 | 133 | 3372.9925 | 1553 | 3.4626 |
| cluster_7 | 119 | 1280.8235 | 748 | 5.7231 |
| cluster_8 | 94 | 4401.3085 | 1486 | 3.91 |
| cluster_9 | 60 | 6326.9833 | 2324 | 3.8756 |
| cluster_10 | 59 | 4024.1017 | 1619 | 3.7041 |
| cluster_11 | 55 | 4332.6364 | 1643 | 3.8362 |
| cluster_12 | 52 | 5131.8654 | 1433.5 | 2.9746 |
| cluster_13 | 47 | 3906.7872 | 1662 | 3.6365 |
| cluster_15 | 45 | 6988.8889 | 1538 | 2.489 |
| cluster_14 | 45 | 4149.5111 | 1611 | 3.6513 |
| cluster_16 | 42 | 1429.6905 | 347 | 2.0844 |
| cluster_17 | 39 | 4085.2051 | 1596 | 3.655 |
| cluster_18 | 36 | 6200.6389 | 1781 | 2.2745 |
| cluster_19 | 33 | 4052.5455 | 1428 | 3.956 |
| cluster_20 | 32 | 4603.4375 | 1686.5 | 4.427 |
| cluster_21 | 32 | 4697.125 | 1568 | 4.9395 |
| cluster_22 | 27 | 3569.2222 | 1373 | 4.2071 |
| cluster_23 | 24 | 4204.1667 | 1387.5 | 4.1008 |
| cluster_24 | 23 | 4564.5652 | 1473 | 3.6312 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_5 | 1 | HBB | 6.8569 | 8.0944 | 1 |
| cluster_34 | 1 | JCHAIN | 6.3416 | 6.3508 | 1 |
| cluster_28 | 1 | HBB | 6.087 | 7.7771 | 1 |
| cluster_15 | 1 | HBB | 6.0864 | 7.6669 | 1 |
| cluster_18 | 1 | HBB | 5.9932 | 7.6028 | 1 |
| cluster_12 | 1 | HBB | 5.7713 | 7.3387 | 1 |
| cluster_1 | 1 | S100A8 | 3.2925 | 4.0291 | 0.996 |
| cluster_29 | 1 | GNLY | 3.2336 | 4.0188 | 1 |
| cluster_23 | 1 | CD74 | 2.9837 | 4.4933 | 1 |
| cluster_16 | 1 | PPBP | 2.9567 | 3.2034 | 0.9762 |
| cluster_30 | 1 | GNLY | 2.8196 | 3.6081 | 1 |
| cluster_9 | 1 | IFI30 | 2.7895 | 3.4238 | 1 |
| cluster_4 | 1 | NKG7 | 2.7554 | 3.5247 | 1 |
| cluster_31 | 1 | TRBV7-3 | 2.7403 | 2.7653 | 1 |
| cluster_17 | 1 | TRBV3-1 | 2.7292 | 2.7642 | 1 |
| cluster_3 | 1 | LYZ | 2.6957 | 3.426 | 1 |
| cluster_32 | 1 | TRBV7-5 | 2.5945 | 2.6099 | 1 |
| cluster_6 | 1 | NKG7 | 2.5589 | 3.3854 | 1 |
| cluster_33 | 1 | CCL5 | 2.5155 | 3.3678 | 1 |
| cluster_10 | 1 | NKG7 | 2.3005 | 3.2293 | 1 |
| cluster_20 | 1 | NKG7 | 2.2751 | 3.2354 | 1 |
| cluster_13 | 1 | CCL5 | 2.267 | 3.0723 | 1 |
| cluster_27 | 1 | GNLY | 2.0886 | 2.8758 | 1 |
| cluster_7 | 1 | S100A8 | 1.9345 | 2.9627 | 0.9664 |
| cluster_11 | 1 | LTB | 1.5555 | 2.2488 | 0.9636 |
| cluster_21 | 1 | CD8B | 1.5464 | 1.65 | 0.9688 |
| cluster_8 | 1 | LTB | 1.5182 | 2.1829 | 1 |
| cluster_24 | 1 | EEF1A1 | 1.4489 | 4.5666 | 1 |
| cluster_2 | 1 | LTB | 1.4485 | 2.0477 | 0.9894 |
| cluster_26 | 1 | LTB | 1.3835 | 2.1098 | 1 |
| cluster_14 | 1 | PPBP | 1.381 | 1.6588 | 0.8222 |
| cluster_25 | 1 | LTB | 1.3428 | 2.0661 | 1 |
| cluster_19 | 1 | LTB | 1.3097 | 2.0241 | 1 |
| cluster_22 | 1 | TRBV6-5 | 1.2764 | 1.294 | 0.7037 |
| cluster_28 | 2 | HBG2 | 5.2128 | 5.2206 | 1 |
| cluster_34 | 2 | MZB1 | 4.5234 | 4.5282 | 1 |
| cluster_5 | 2 | HBA2 | 3.8737 | 4.2616 | 1 |
| cluster_15 | 2 | HBA2 | 3.4812 | 4.0619 | 1 |
| cluster_18 | 2 | HBA2 | 3.331 | 3.9301 | 1 |
| cluster_12 | 2 | HBA2 | 3.276 | 3.8498 | 1 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
GC-035-04-1A
Sample ID
GC-035-04-1A
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
15,287
Analysis Status
Matrix available; UMAP generated
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-035-04-1A.counts.matrix.tsv.gz (25.32 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=15287; raw genes=21465; Leiden clusters=34; coordinates TSV and summary JSON are available online.; 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-035-04-1A
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 available
matrix file name
GC-035-04-1A.counts.matrix.tsv.gz
matrix file size bytes
26548627
matrix file size mb
25.32
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=15287; raw_genes=21465; leiden_clusters=34; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated