HSCC-130-03-1H
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-130-03-1H, generated 2026-07-09 12:54:49 +0800.
2,000Cells analyzed
14Clusters
20,121Expressed genes
3322Mean UMI
1250Mean genes
8.149Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| B_plasma | 14 | 1.0963 | 2.5107 | 8 |
| Myeloid_APC | 14 | 0.2785 | 0.6362 | 9 |
| Proliferation | 14 | 0.2778 | 1.8727 | 7 |
| T_NK_cytotoxic | 14 | 0.2705 | 0.8322 | 10 |
| Checkpoint_exhaustion | 14 | 0.0884 | 0.3999 | 8 |
| Endothelial | 14 | 0.0773 | 0.8693 | 7 |
| Fibroblast_stroma | 14 | 0.0094 | 0.0688 | 8 |
| Epithelial_tumor | 14 | 0.0054 | 0.0519 | 8 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 397 | 2484.1864 | 996 | 8.8463 |
| cluster_2 | 358 | 2828.5 | 1050 | 8.8668 |
| cluster_3 | 338 | 2472.6568 | 944 | 7.911 |
| cluster_4 | 207 | 3478.6135 | 1278 | 7.5695 |
| cluster_5 | 179 | 2352.5475 | 947 | 8.3321 |
| cluster_6 | 168 | 3734.8095 | 1367.5 | 7.3938 |
| cluster_7 | 89 | 7808.8427 | 2139 | 7.0635 |
| cluster_8 | 58 | 2669.8103 | 1033.5 | 8.2988 |
| cluster_9 | 57 | 6328.5263 | 1325 | 5.6843 |
| cluster_10 | 56 | 3047.1964 | 1240 | 8.6064 |
| cluster_11 | 29 | 12576.5517 | 3480 | 7.5726 |
| cluster_12 | 26 | 4671.4615 | 1421.5 | 8.5618 |
| cluster_13 | 20 | 3995.9 | 1660.5 | 8.0991 |
| cluster_14 | 18 | 5191.1667 | 1678 | 6.5547 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_9 | 1 | IGKC | 3.5942 | 5.0533 | 0.9123 |
| cluster_11 | 1 | TUBA1B | 3.0998 | 3.8362 | 1 |
| cluster_14 | 1 | GZMB | 2.7285 | 2.7372 | 1 |
| cluster_7 | 1 | TUBA1B | 2.4484 | 3.1207 | 1 |
| cluster_13 | 1 | IGFBP7 | 2.0808 | 2.11 | 0.85 |
| cluster_8 | 1 | CCL5 | 1.9479 | 2.0956 | 0.8621 |
| cluster_6 | 1 | ACTG1 | 1.2358 | 2.5103 | 0.994 |
| cluster_1 | 1 | IGHM | 1.2242 | 1.9537 | 0.9748 |
| cluster_12 | 1 | CST3 | 1.1675 | 1.2164 | 0.4615 |
| cluster_4 | 1 | TRBC2 | 1.1093 | 1.948 | 0.9565 |
| cluster_2 | 1 | HLA-DRA | 0.9241 | 2.8769 | 1 |
| cluster_3 | 1 | DNAJB1 | 0.818 | 2.862 | 0.997 |
| cluster_5 | 1 | GIMAP7 | 0.716 | 0.994 | 0.7877 |
| cluster_10 | 1 | IGHM | 0.6655 | 1.6194 | 0.9464 |
| cluster_9 | 2 | IGHG4 | 3.2103 | 3.4787 | 0.8421 |
| cluster_11 | 2 | TUBB | 2.8485 | 3.2668 | 1 |
| cluster_14 | 2 | GPR183 | 2.6918 | 3.5169 | 1 |
| cluster_7 | 2 | HMGB2 | 2.2927 | 2.6411 | 1 |
| cluster_13 | 2 | IFITM3 | 1.8676 | 1.971 | 0.95 |
| cluster_6 | 2 | MS4A1 | 1.2333 | 2.501 | 0.994 |
| cluster_12 | 2 | LYZ | 1.1606 | 1.1802 | 0.3846 |
| cluster_8 | 2 | NKG7 | 1.154 | 1.1791 | 0.8793 |
| cluster_4 | 2 | SRGN | 1.0825 | 1.8416 | 0.9227 |
| cluster_1 | 2 | CD74 | 0.9052 | 3.6213 | 1 |
| cluster_2 | 2 | CD69 | 0.7938 | 2.8381 | 0.9804 |
| cluster_3 | 2 | JUN | 0.7809 | 2.8922 | 1 |
| cluster_5 | 2 | CD3D | 0.5867 | 1.0617 | 0.8212 |
| cluster_10 | 2 | GIMAP7 | 0.4389 | 0.7687 | 0.6964 |
| cluster_9 | 3 | JCHAIN | 2.9639 | 3.1329 | 0.9123 |
| cluster_11 | 3 | HMGB2 | 2.7038 | 3.1151 | 1 |
| cluster_14 | 3 | DUSP5 | 2.2718 | 2.4613 | 0.9444 |
| cluster_7 | 3 | HMGB1 | 2.2182 | 3.0021 | 1 |
| cluster_13 | 3 | VIM | 1.8058 | 2.1571 | 0.95 |
| cluster_6 | 3 | CD79B | 1.2245 | 1.9364 | 0.9762 |
| cluster_12 | 3 | TNFAIP3 | 1.1398 | 1.7134 | 0.8462 |
| cluster_8 | 3 | GNLY | 0.9506 | 0.9744 | 0.3793 |
| cluster_4 | 3 | CD3D | 0.9465 | 1.376 | 0.8744 |
| cluster_1 | 3 | HLA-DRA | 0.8679 | 2.8138 | 1 |
| cluster_2 | 3 | CD74 | 0.7887 | 3.5432 | 1 |
| cluster_3 | 3 | FOS | 0.726 | 2.5701 | 0.9882 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
HSCC-130-03-1H
Sample ID
HSCC-130-03-1H
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
3,268
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-130-03-1H.counts.matrix.tsv.gz (5.34 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=3268; raw genes=21932; Leiden clusters=14; 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-130-03-1H
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-130-03-1H.counts.matrix.tsv.gz
matrix file size bytes
5594331
matrix file size mb
5.34
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=3268; raw_genes=21932; leiden_clusters=14; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated