SCCIS-099-01-1A
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 SCCIS-099-01-1A, generated 2026-07-09 12:54:49 +0800.
1,999Cells analyzed
10Clusters
24,113Expressed genes
2234Mean genes
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| Fibroblast_stroma | 10 | 0.6796 | 2.256 | 8 |
| Epithelial_tumor | 10 | 0.4942 | 1.2443 | 8 |
| Myeloid_APC | 10 | 0.3212 | 0.9209 | 9 |
| Endothelial | 10 | 0.1668 | 1.0125 | 6 |
| B_plasma | 10 | 0.0757 | 0.3674 | 8 |
| Proliferation | 10 | 0.0754 | 0.1146 | 7 |
| Checkpoint_exhaustion | 10 | 0.0312 | 0.0679 | 8 |
| T_NK_cytotoxic | 10 | 0.0272 | 0.1189 | 10 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_9 | 279 | 2231 | ||
| cluster_5 | 257 | 1795 | ||
| cluster_6 | 243 | 1907 | ||
| cluster_3 | 231 | 2811 | ||
| cluster_4 | 231 | 2312 | ||
| cluster_2 | 199 | 3426 | ||
| cluster_8 | 177 | 2085 | ||
| cluster_1 | 153 | 729 | ||
| cluster_7 | 126 | 1812 | ||
| cluster_10 | 103 | 1472 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_2 | 1 | DMKN | 3.3242 | 3.4866 | 0.9849 |
| cluster_4 | 1 | DCN | 3.2704 | 3.7298 | 1 |
| cluster_3 | 1 | KRT14 | 3.1256 | 4.6879 | 1 |
| cluster_9 | 1 | CD74 | 2.3141 | 2.6166 | 0.9892 |
| cluster_10 | 1 | TAGLN | 2.1004 | 2.4166 | 0.9709 |
| cluster_8 | 1 | RGS5 | 2.0919 | 2.2992 | 0.9492 |
| cluster_7 | 1 | KRT15 | 1.8812 | 2.4968 | 0.9127 |
| cluster_6 | 1 | COL1A1 | 1.4951 | 2.424 | 0.7449 |
| cluster_5 | 1 | KRT14 | 0.9129 | 2.7191 | 0.9222 |
| cluster_1 | 1 | ARHGAP15 | 0.4364 | 0.6216 | 0.5425 |
| cluster_2 | 2 | KRT10 | 3.3025 | 4.0138 | 0.9899 |
| cluster_4 | 2 | CFD | 3.1755 | 3.5058 | 0.9784 |
| cluster_3 | 2 | S100A2 | 3.1102 | 4.4714 | 1 |
| cluster_9 | 2 | CCL14 | 2.1597 | 2.2481 | 0.81 |
| cluster_8 | 2 | MGP | 1.8553 | 2.8679 | 0.9887 |
| cluster_10 | 2 | ADIRF | 1.7384 | 2.416 | 0.9903 |
| cluster_7 | 2 | MT1X | 1.6204 | 2.6791 | 0.9444 |
| cluster_6 | 2 | COL1A2 | 1.4655 | 2.4055 | 0.8066 |
| cluster_5 | 2 | MIR205HG | 0.6705 | 1.373 | 0.6265 |
| cluster_1 | 2 | TPSB2 | 0.4317 | 0.4391 | 0.2288 |
| cluster_2 | 3 | FABP5 | 3.2548 | 3.9218 | 0.995 |
| cluster_4 | 3 | COL1A2 | 2.8544 | 3.6427 | 1 |
| cluster_3 | 3 | KRT15 | 2.569 | 3.0063 | 0.987 |
| cluster_9 | 3 | HLA-DRB1 | 2.084 | 2.3451 | 0.9642 |
| cluster_8 | 3 | IGFBP7 | 1.7872 | 3.026 | 1 |
| cluster_10 | 3 | RGS5 | 1.6864 | 1.992 | 0.932 |
| cluster_7 | 3 | CXCL14 | 1.4929 | 2.8259 | 0.9683 |
| cluster_6 | 3 | COL3A1 | 1.4282 | 2.3096 | 0.7819 |
| cluster_5 | 3 | KRT5 | 0.5685 | 1.8043 | 0.7588 |
| cluster_1 | 3 | PTPRC | 0.4222 | 0.5225 | 0.4379 |
| cluster_2 | 4 | SFN | 3.126 | 4.1087 | 1 |
| cluster_4 | 4 | SFRP2 | 2.8075 | 3.0111 | 0.9827 |
| cluster_3 | 4 | AREG | 2.5047 | 2.872 | 0.9784 |
| cluster_9 | 4 | MCTP1 | 1.9616 | 2.1103 | 0.9462 |
| cluster_8 | 4 | SPARC | 1.6594 | 2.6263 | 0.9831 |
| cluster_10 | 4 | ACTA2 | 1.6524 | 1.8055 | 0.8738 |
| cluster_7 | 4 | MT2A | 1.3352 | 3.8082 | 0.9603 |
| cluster_6 | 4 | VIM | 1.0669 | 2.7873 | 0.9959 |
| cluster_5 | 4 | S100A2 | 0.5573 | 2.2063 | 0.8405 |
| cluster_1 | 4 | CD69 | 0.4114 | 0.506 | 0.4183 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
SCCIS-099-01-1A
Sample ID
SCCIS-099-01-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Squamous Cell Carcinoma in Situ
Age / Age Group
Pan-cancer Chinese cohort, per-donor ages not in CancerSCEM metadata
Sex
Not reported in public CancerSCEM metadata
Health Status
Squamous Cell Carcinoma in Situ; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (10X Genomics)
Cell Count
16,781
Analysis Status
Matrix available; UMAP generated by fallback sampled pipeline
UMAP Status
Ready
Metadata / Source Notes
Project ID: SCCIS-099; Cancer type: Squamous Cell Carcinoma in Situ; Source: NCBI (GEO); Accession: GSE193304; Country: CHN; Sample type: Tumour; Protocol: 10X Genomics; Matrix: SCCIS-099-01-1A.counts.matrix.tsv.gz (41.69 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
Squamous Cell Carcinoma in Situ
cancer type short
SCCIS
library count
1
library sample ids
SCCIS-099-01-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (GEO); accession=GSE193304; downloaded 2026-07-06
data accession
GSE193304
project id
SCCIS-099
sample type
Tumour
country
CHN
data source
NCBI (GEO)
accession no
GSE193304
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix incomplete; redownload required
matrix file name
SCCIS-099-01-1A.counts.matrix.tsv.gz
matrix file size bytes
43712257
matrix file size mb
41.69
umap coordinates url
umap summary url
umap pipeline
Fallback Python normalize_total/log1p/HVG/SVD/UMAP; sampled 3000/16781 cells; generated 2026-07-09
matrix integrity status
Gzip EOF/truncated during UMAP generation