ESCC-111-42-1A
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 ESCC-111-42-1A, generated 2026-07-09 12:54:49 +0800.
2,000Cells analyzed
10Clusters
4,746Expressed genes
472.7Mean genes
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| Fibroblast_stroma | 10 | 0.7333 | 3.2777 | 1 |
| T_NK_cytotoxic | 10 | 0.4822 | 2.048 | 2 |
| Checkpoint_exhaustion | 10 | 0.2954 | 1.0097 | 3 |
| Proliferation | 10 | 0.2443 | 0.7003 | 2 |
| Epithelial_tumor | 10 | 0.1888 | 1.7743 | 3 |
| Myeloid_APC | 10 | 0.1038 | 0.7661 | 5 |
| B_plasma | 10 | 0.084 | 0.3052 | 1 |
| Endothelial | 10 | 0 | 0 | 0 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_4 | 534 | 395 | ||
| cluster_7 | 396 | 244.5 | ||
| cluster_3 | 298 | 405 | ||
| cluster_9 | 224 | 530.5 | ||
| cluster_2 | 170 | 434 | ||
| cluster_1 | 113 | 808 | ||
| cluster_10 | 100 | 858 | ||
| cluster_6 | 67 | 788 | ||
| cluster_8 | 59 | 620 | ||
| cluster_5 | 39 | 487 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_8 | 1 | RGS5 | 3.4345 | 3.4476 | 0.9661 |
| cluster_10 | 1 | TACSTD2 | 3.2468 | 3.2632 | 0.99 |
| cluster_1 | 1 | CCDC80 | 3.2306 | 3.3166 | 0.9912 |
| cluster_6 | 1 | COL3A1 | 3.0882 | 3.2777 | 0.9701 |
| cluster_3 | 1 | GNLY | 2.5231 | 2.8693 | 0.8792 |
| cluster_5 | 1 | TM4SF1 | 1.5242 | 1.5946 | 0.7692 |
| cluster_2 | 1 | TNFRSF4 | 1.5066 | 1.5817 | 0.8706 |
| cluster_9 | 1 | CD8A | 1.2548 | 1.7788 | 0.7812 |
| cluster_7 | 1 | FCER1G | 1.1973 | 1.3787 | 0.6364 |
| cluster_4 | 1 | CXCR4 | 1.0945 | 1.889 | 0.9213 |
| cluster_1 | 2 | SERPINE2 | 3.1691 | 3.2625 | 0.9823 |
| cluster_10 | 2 | ELF3 | 3.1436 | 3.1533 | 0.96 |
| cluster_6 | 2 | IGFBP5 | 2.3854 | 2.4996 | 0.8806 |
| cluster_8 | 2 | JUN | 1.985 | 4.0138 | 1 |
| cluster_5 | 2 | HSPG2 | 1.4625 | 1.5409 | 0.9744 |
| cluster_2 | 2 | TNFRSF18 | 1.4156 | 1.6879 | 0.8824 |
| cluster_3 | 2 | CD8A | 1.2913 | 1.7634 | 0.8859 |
| cluster_7 | 2 | G0S2 | 1.0866 | 1.2794 | 0.452 |
| cluster_9 | 2 | RGS1 | 0.9947 | 1.7323 | 0.8527 |
| cluster_4 | 2 | RPS27 | 0.8811 | 3.4671 | 0.9888 |
| cluster_10 | 3 | S100A6 | 2.5744 | 4.2475 | 0.98 |
| cluster_1 | 3 | CCN1 | 2.4682 | 2.6563 | 0.9381 |
| cluster_6 | 3 | ID3 | 2.2209 | 2.7047 | 0.9701 |
| cluster_8 | 3 | ID3 | 1.9089 | 2.4108 | 0.9831 |
| cluster_5 | 3 | CALCRL | 1.4374 | 1.4581 | 0.8974 |
| cluster_2 | 3 | ICOS | 1.3981 | 1.7219 | 0.9471 |
| cluster_7 | 3 | IL1B | 1.0813 | 1.1436 | 0.3737 |
| cluster_9 | 3 | CBLB | 0.9209 | 1.6297 | 0.9286 |
| cluster_3 | 3 | RGS1 | 0.9116 | 1.6248 | 0.8993 |
| cluster_4 | 3 | RPS27A | 0.7256 | 3.1714 | 0.9963 |
| cluster_1 | 4 | JUN | 2.4318 | 4.3817 | 1 |
| cluster_10 | 4 | BCAS2 | 2.3822 | 2.9034 | 1 |
| cluster_6 | 4 | FN1 | 2.2058 | 2.4102 | 0.9701 |
| cluster_8 | 4 | ATF3 | 1.7521 | 2.5344 | 0.9492 |
| cluster_2 | 4 | S100A4 | 1.3816 | 2.7259 | 0.9706 |
| cluster_5 | 4 | SELE | 1.2887 | 1.289 | 0.5385 |
| cluster_7 | 4 | S100A9 | 1.0084 | 1.0543 | 0.4874 |
| cluster_3 | 4 | CD52 | 0.9052 | 1.8633 | 0.9362 |
| cluster_9 | 4 | PTPRC | 0.8406 | 1.8704 | 0.9866 |
| cluster_4 | 4 | CD52 | 0.6872 | 1.5968 | 0.8352 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
ESCC-111-42-1A
Sample ID
ESCC-111-42-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Esophageal 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
Esophageal Squamous Cell Carcinoma; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (10X Genomics)
Cell Count
2,897
Analysis Status
Matrix available; UMAP generated by fallback sampled pipeline
UMAP Status
Ready
Metadata / Source Notes
Project ID: ESCC-111; Cancer type: Esophageal Squamous Cell Carcinoma; Source: NCBI (GEO); Accession: GSE160269; Country: CHN; Sample type: Tumour; Protocol: 10X Genomics; Matrix: ESCC-111-42-1A.counts.matrix.tsv.gz (1.59 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
Esophageal Squamous Cell Carcinoma
cancer type short
ESCC
library count
1
library sample ids
ESCC-111-42-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (GEO); accession=GSE160269; downloaded 2026-07-06
data accession
GSE160269
project id
ESCC-111
sample type
Tumour
country
CHN
data source
NCBI (GEO)
accession no
GSE160269
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix incomplete; redownload required
matrix file name
ESCC-111-42-1A.counts.matrix.tsv.gz
matrix file size bytes
1670915
matrix file size mb
1.59
umap coordinates url
umap summary url
umap pipeline
Fallback Python normalize_total/log1p/HVG/SVD/UMAP; sampled 2897/2897 cells; generated 2026-07-09
matrix integrity status
Gzip EOF/truncated during UMAP generation