HSCC-130-04-1H
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-130-04-1H, generated 2026-07-09 12:54:49 +0800.
1,998Cells analyzed
19Clusters
22,708Expressed genes
5958Mean UMI
1802Mean genes
7.63Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| B_plasma | 19 | 0.6541 | 1.927 | 8 |
| Myeloid_APC | 19 | 0.6231 | 1.8949 | 9 |
| Endothelial | 19 | 0.2328 | 1.3428 | 7 |
| Fibroblast_stroma | 19 | 0.2306 | 2.2841 | 8 |
| Proliferation | 19 | 0.1548 | 1.2948 | 7 |
| T_NK_cytotoxic | 19 | 0.1264 | 0.5134 | 10 |
| Epithelial_tumor | 19 | 0.1201 | 1.4593 | 8 |
| Checkpoint_exhaustion | 19 | 0.0705 | 0.251 | 8 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 298 | 10166.4664 | 2555 | 7.4425 |
| cluster_2 | 177 | 6019.8701 | 1729 | 8.2548 |
| cluster_3 | 173 | 6245.0751 | 947 | 5.2539 |
| cluster_4 | 158 | 2992.3418 | 1077 | 8.0472 |
| cluster_5 | 145 | 4279.3379 | 1706 | 7.8943 |
| cluster_6 | 133 | 4661.7143 | 1843 | 7.9194 |
| cluster_7 | 132 | 2986.053 | 1145.5 | 8.6096 |
| cluster_8 | 131 | 6230.6412 | 1978 | 7.8475 |
| cluster_9 | 86 | 3030.6512 | 1198.5 | 8.437 |
| cluster_10 | 79 | 10079.0253 | 2465 | 6.3785 |
| cluster_11 | 74 | 6073.7703 | 1713.5 | 8.2405 |
| cluster_12 | 65 | 4173.3231 | 1435 | 8.1512 |
| cluster_13 | 61 | 4642.8689 | 1539 | 6.5208 |
| cluster_14 | 60 | 5462.8833 | 1827 | 8.1193 |
| cluster_15 | 56 | 3332.5893 | 1302.5 | 7.7507 |
| cluster_16 | 56 | 5162.5893 | 2013.5 | 8.6722 |
| cluster_17 | 55 | 9542.0182 | 2290 | 7.4003 |
| cluster_18 | 44 | 8372.0909 | 2286.5 | 7.4198 |
| cluster_19 | 15 | 3170 | 1111 | 7.6781 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_19 | 1 | TPSB2 | 5.0779 | 5.0946 | 1 |
| cluster_10 | 1 | KRT14 | 5.0315 | 5.2279 | 1 |
| cluster_12 | 1 | CCL21 | 4.8291 | 5.0838 | 0.9846 |
| cluster_1 | 1 | SPP1 | 4.7127 | 5.3146 | 0.9866 |
| cluster_3 | 1 | IGKC | 4.1602 | 4.9286 | 0.8844 |
| cluster_18 | 1 | SELENOP | 3.4839 | 3.9964 | 1 |
| cluster_14 | 1 | RNASE1 | 3.2286 | 4.192 | 1 |
| cluster_8 | 1 | COL3A1 | 3.2006 | 3.32 | 0.9695 |
| cluster_6 | 1 | NTS | 2.9139 | 3.0708 | 0.9925 |
| cluster_13 | 1 | GZMB | 2.7435 | 2.7652 | 1 |
| cluster_16 | 1 | SPARCL1 | 2.7173 | 2.8917 | 1 |
| cluster_11 | 1 | HLA-DRA | 2.6003 | 4.6053 | 1 |
| cluster_2 | 1 | HLA-DRA | 2.4743 | 4.3564 | 1 |
| cluster_17 | 1 | TUBA1B | 1.8771 | 3.211 | 0.9455 |
| cluster_5 | 1 | TFPI | 1.8728 | 2.2073 | 0.9862 |
| cluster_7 | 1 | CD69 | 1.7675 | 2.8487 | 0.9848 |
| cluster_9 | 1 | CCL5 | 1.7299 | 2.0371 | 0.8837 |
| cluster_4 | 1 | CD69 | 1.7247 | 2.7864 | 0.9747 |
| cluster_15 | 1 | TRBC2 | 1.0784 | 1.3476 | 0.7857 |
| cluster_19 | 2 | TPSAB1 | 4.7033 | 4.7113 | 1 |
| cluster_10 | 2 | KRT17 | 4.3293 | 4.4733 | 1 |
| cluster_18 | 2 | CST3 | 3.3552 | 4.8698 | 1 |
| cluster_1 | 2 | APOE | 3.1645 | 3.6385 | 0.9765 |
| cluster_14 | 2 | SELENOP | 3.1013 | 3.5975 | 1 |
| cluster_3 | 2 | IGHG3 | 3.0199 | 3.2146 | 0.7052 |
| cluster_8 | 2 | SPARC | 2.9993 | 3.2494 | 0.9771 |
| cluster_12 | 2 | CXCL12 | 2.9557 | 3.0942 | 1 |
| cluster_11 | 2 | HLA-DPB1 | 2.3672 | 3.4858 | 1 |
| cluster_13 | 2 | GPR183 | 2.3528 | 3.4886 | 1 |
| cluster_2 | 2 | CCL3 | 2.3008 | 3.5228 | 0.9379 |
| cluster_6 | 2 | TFPI | 2.2643 | 2.584 | 1 |
| cluster_16 | 2 | IGFBP7 | 2.1288 | 3.0216 | 0.9643 |
| cluster_17 | 2 | HMGB2 | 1.8643 | 2.1436 | 0.8909 |
| cluster_5 | 2 | LYVE1 | 1.7812 | 1.9091 | 0.8276 |
| cluster_9 | 2 | CD69 | 1.5952 | 2.7246 | 0.9884 |
| cluster_7 | 2 | MS4A1 | 1.3502 | 1.5474 | 0.9167 |
| cluster_15 | 2 | PMAIP1 | 1.0388 | 1.5819 | 0.8929 |
| cluster_4 | 2 | CCR7 | 0.9334 | 1.234 | 0.7342 |
| cluster_10 | 3 | KRT6A | 4.3126 | 4.416 | 1 |
| cluster_19 | 3 | CPA3 | 3.2332 | 3.2362 | 1 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
HSCC-130-04-1H
Sample ID
HSCC-130-04-1H
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
2,250
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-130-04-1H.counts.matrix.tsv.gz (5.11 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=2250; raw genes=23862; 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-130-04-1H
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-130-04-1H.counts.matrix.tsv.gz
matrix file size bytes
5360111
matrix file size mb
5.11
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=2250; raw_genes=23862; leiden_clusters=19; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated