HSCC-130-05-1H
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 HSCC-130-05-1H, generated 2026-07-09 12:54:49 +0800.
1,998Cells analyzed
19Clusters
22,148Expressed genes
4909Mean UMI
1601Mean genes
5.612Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| B_plasma | 19 | 0.7225 | 2.2271 | 8 |
| Myeloid_APC | 19 | 0.6203 | 2.1246 | 9 |
| Fibroblast_stroma | 19 | 0.4079 | 2.5292 | 8 |
| Epithelial_tumor | 19 | 0.3569 | 0.9791 | 8 |
| Proliferation | 19 | 0.1472 | 0.8283 | 7 |
| Endothelial | 19 | 0.1286 | 1.0528 | 7 |
| T_NK_cytotoxic | 19 | 0.0719 | 0.3903 | 10 |
| Checkpoint_exhaustion | 19 | 0.036 | 0.138 | 8 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 316 | 5542.5949 | 2030.5 | 5.9764 |
| cluster_2 | 219 | 6478.7671 | 2369 | 5.7804 |
| cluster_3 | 193 | 4732.7772 | 779 | 2.8835 |
| cluster_4 | 190 | 3659.3632 | 1271.5 | 6.9904 |
| cluster_5 | 182 | 2774.6484 | 1229 | 5.9778 |
| cluster_6 | 157 | 4607.4331 | 744 | 3.139 |
| cluster_7 | 139 | 3547.9784 | 1490 | 7.0173 |
| cluster_8 | 118 | 5813.2712 | 2040.5 | 5.2018 |
| cluster_9 | 114 | 5715.9912 | 1833 | 6.9108 |
| cluster_10 | 109 | 7419.1284 | 1899 | 4.9229 |
| cluster_11 | 83 | 6477.8434 | 2025 | 5.5327 |
| cluster_12 | 75 | 3849.2133 | 1090 | 6.3486 |
| cluster_13 | 34 | 3522.2353 | 1348.5 | 7.5686 |
| cluster_14 | 30 | 3131.2333 | 1360 | 7.6475 |
| cluster_15 | 11 | 2696.7273 | 1105 | 5.3965 |
| cluster_17 | 9 | 2546.7778 | 1023 | 8.0109 |
| cluster_16 | 9 | 2804.7778 | 1383 | 8.2093 |
| cluster_19 | 5 | 2453.4 | 1242 | 7.1756 |
| cluster_18 | 5 | 6343.6 | 1037 | 3.1939 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_3 | 1 | IGKC | 5.0619 | 7.0444 | 1 |
| cluster_19 | 1 | CCL21 | 4.8931 | 4.9131 | 1 |
| cluster_17 | 1 | TPSAB1 | 4.5835 | 4.6165 | 1 |
| cluster_18 | 1 | SPRR3 | 4.2998 | 4.3578 | 1 |
| cluster_10 | 1 | PI3 | 3.9843 | 5.2156 | 1 |
| cluster_9 | 1 | CD74 | 3.5134 | 4.4288 | 1 |
| cluster_7 | 1 | COL1A1 | 3.3052 | 3.7608 | 1 |
| cluster_13 | 1 | CD74 | 3.2273 | 4.2883 | 1 |
| cluster_6 | 1 | IGLC2 | 3.2045 | 3.8899 | 0.8662 |
| cluster_15 | 1 | GZMB | 2.9923 | 3.0445 | 1 |
| cluster_5 | 1 | DCN | 2.8819 | 3.2252 | 0.9945 |
| cluster_14 | 1 | SPARC | 2.6069 | 3.1749 | 1 |
| cluster_16 | 1 | IGFBP7 | 2.51 | 2.9941 | 1 |
| cluster_11 | 1 | S100A9 | 2.3895 | 4.1349 | 1 |
| cluster_4 | 1 | IL1B | 2.3325 | 2.5579 | 0.8737 |
| cluster_8 | 1 | SLC2A1 | 2.0061 | 2.892 | 0.9831 |
| cluster_1 | 1 | KRT17 | 1.7782 | 3.8424 | 1 |
| cluster_2 | 1 | AKR1C3 | 1.6447 | 2.5645 | 0.9909 |
| cluster_12 | 1 | CD52 | 0.886 | 1.1743 | 0.8267 |
| cluster_3 | 2 | IGHG1 | 4.326 | 5.6805 | 1 |
| cluster_17 | 2 | TPSB2 | 4.0674 | 4.1006 | 1 |
| cluster_10 | 2 | SPRR1B | 3.9482 | 4.5508 | 1 |
| cluster_9 | 2 | HLA-DRA | 3.3072 | 3.8998 | 1 |
| cluster_7 | 2 | COL3A1 | 3.2987 | 3.786 | 1 |
| cluster_18 | 2 | SPRR2A | 3.193 | 3.3398 | 1 |
| cluster_13 | 2 | HLA-DRA | 2.9363 | 3.6676 | 1 |
| cluster_6 | 2 | IGHA1 | 2.8151 | 3.6338 | 0.8981 |
| cluster_19 | 2 | IGFBP7 | 2.7489 | 3.2374 | 1 |
| cluster_15 | 2 | CD74 | 2.7139 | 3.8149 | 1 |
| cluster_5 | 2 | LUM | 2.7023 | 3.1241 | 0.989 |
| cluster_14 | 2 | IGFBP7 | 2.5727 | 3.0295 | 1 |
| cluster_11 | 2 | S100A8 | 2.3382 | 3.9178 | 0.988 |
| cluster_4 | 2 | CCL3 | 2.3186 | 2.6988 | 0.9421 |
| cluster_16 | 2 | COL4A1 | 1.9321 | 2.0975 | 1 |
| cluster_8 | 2 | NDRG1 | 1.9252 | 2.5217 | 0.9831 |
| cluster_2 | 2 | AKR1B10 | 1.6161 | 2.7135 | 0.9954 |
| cluster_1 | 2 | AKR1C3 | 1.6095 | 2.4551 | 0.9842 |
| cluster_12 | 2 | RGS1 | 0.8824 | 1.611 | 0.8533 |
| cluster_10 | 3 | S100A8 | 3.6273 | 5.1062 | 1 |
| cluster_17 | 3 | CPA3 | 3.5684 | 3.5809 | 1 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
HSCC-130-05-1H
Sample ID
HSCC-130-05-1H
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Hypopharygeal Squamous Cell Carcinoma
Age / Age Group
Pan-cancer Chinese cohort, per-donor ages not in CancerSCEM metadata
Sex
Not reported in public CancerSCEM metadata
Health Status
Hypopharygeal Squamous Cell Carcinoma; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (GEXSCOPE)
Cell Count
9,921
Analysis Status
Matrix available; UMAP generated
UMAP Status
Ready
Metadata / Source Notes
Project ID: HSCC-130; Cancer type: Hypopharygeal Squamous Cell Carcinoma; Source: NCBI (GEO); Accession: GSE227156; Country: CHN; Sample type: Tumour; Protocol: GEXSCOPE; Matrix: HSCC-130-05-1H.counts.matrix.tsv.gz (19.02 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=9921; raw genes=24709; Leiden clusters=19; 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
Hypopharygeal Squamous Cell Carcinoma
cancer type short
HSCC
library count
1
library sample ids
HSCC-130-05-1H
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (GEO); accession=GSE227156; downloaded 2026-07-06
data accession
GSE227156
project id
HSCC-130
sample type
Tumour
country
CHN
data source
NCBI (GEO)
accession no
GSE227156
construction protocol
GEXSCOPE
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix available
matrix file name
HSCC-130-05-1H.counts.matrix.tsv.gz
matrix file size bytes
19943329
matrix file size mb
19.02
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=9921; raw_genes=24709; leiden_clusters=19; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated