LUSC-092-03-1A
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 LUSC-092-03-1A, generated 2026-07-09 12:54:49 +0800.
2,000Cells analyzed
17Clusters
25,367Expressed genes
5608Mean UMI
1881Mean genes
3.694Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| B_plasma | 17 | 0.4919 | 2.5258 | 8 |
| T_NK_cytotoxic | 17 | 0.3775 | 1.5534 | 10 |
| Checkpoint_exhaustion | 17 | 0.229 | 0.672 | 8 |
| Myeloid_APC | 17 | 0.2234 | 0.9073 | 9 |
| Proliferation | 17 | 0.1318 | 1.3921 | 7 |
| Epithelial_tumor | 17 | 0.129 | 0.7264 | 8 |
| Fibroblast_stroma | 17 | 0.0646 | 0.7982 | 8 |
| Endothelial | 17 | 0.0398 | 0.152 | 7 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 415 | 1822.3446 | 856 | 2.7993 |
| cluster_2 | 293 | 5681.8805 | 2497 | 4.9833 |
| cluster_3 | 269 | 8062.5874 | 3079 | 3.526 |
| cluster_4 | 179 | 1800.3464 | 738 | 3.2652 |
| cluster_5 | 139 | 3310.6115 | 809 | 3.687 |
| cluster_6 | 122 | 3495.5902 | 423 | 2.7508 |
| cluster_7 | 116 | 8954.5517 | 3220 | 3.5412 |
| cluster_8 | 101 | 1776.099 | 669 | 4.6723 |
| cluster_9 | 93 | 10080.6452 | 3410 | 4.2375 |
| cluster_10 | 74 | 8395.3378 | 2890.5 | 4.5391 |
| cluster_11 | 62 | 28127.7581 | 3881 | 1.896 |
| cluster_12 | 43 | 8537.7674 | 2995 | 5.405 |
| cluster_13 | 33 | 3361.4848 | 823 | 4.9935 |
| cluster_14 | 23 | 7617.913 | 2226 | 4.9797 |
| cluster_15 | 22 | 10052.2273 | 3861 | 3.0068 |
| cluster_16 | 12 | 1411.5833 | 623.5 | 5.865 |
| cluster_17 | 4 | 1166.5 | 744 | 1.7726 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_11 | 1 | IGKC | 4.6806 | 5.7177 | 0.9677 |
| cluster_14 | 1 | CPA3 | 3.5566 | 3.5583 | 1 |
| cluster_6 | 1 | IGKC | 3.2237 | 4.2093 | 0.959 |
| cluster_12 | 1 | BANK1 | 3.0674 | 3.09 | 0.9767 |
| cluster_1 | 1 | S100A8 | 2.744 | 3.0166 | 0.9831 |
| cluster_3 | 1 | CCL5 | 2.5329 | 3.2023 | 0.9963 |
| cluster_9 | 1 | CCL5 | 2.4765 | 3.3714 | 0.9677 |
| cluster_7 | 1 | AL136456.1 | 2.2032 | 2.3327 | 0.7845 |
| cluster_15 | 1 | HMGB2 | 2.1608 | 2.5728 | 0.9545 |
| cluster_4 | 1 | CXCL8 | 2.0276 | 2.281 | 0.8994 |
| cluster_10 | 1 | ANK3 | 1.8323 | 2.2075 | 0.9459 |
| cluster_5 | 1 | KRT18 | 1.7878 | 1.8863 | 0.9209 |
| cluster_8 | 1 | FTL | 1.7791 | 3.6173 | 0.9901 |
| cluster_17 | 1 | DYNLL1 | 1.7087 | 2.2154 | 1 |
| cluster_13 | 1 | IGFBP7 | 1.6982 | 1.8162 | 0.7879 |
| cluster_2 | 1 | CCL5 | 1.5069 | 2.2962 | 0.9147 |
| cluster_16 | 1 | WFDC2 | 1.097 | 1.1672 | 0.6667 |
| cluster_11 | 2 | JCHAIN | 3.799 | 4.0056 | 0.9194 |
| cluster_14 | 2 | TPSB2 | 3.3942 | 3.3994 | 0.9565 |
| cluster_6 | 2 | IGHG3 | 2.9088 | 3.3625 | 0.8443 |
| cluster_1 | 2 | S100A9 | 2.307 | 2.716 | 0.9831 |
| cluster_12 | 2 | HLA-DRA | 2.2919 | 2.7551 | 0.9767 |
| cluster_9 | 2 | GNLY | 2.2725 | 2.4603 | 0.7419 |
| cluster_3 | 2 | CCL4 | 2.2266 | 2.8319 | 0.9517 |
| cluster_15 | 2 | HIST1H4C | 2.157 | 2.835 | 0.9091 |
| cluster_7 | 2 | IKZF2 | 2.0591 | 2.1479 | 0.8879 |
| cluster_10 | 2 | MALAT1 | 1.8268 | 5.8301 | 1 |
| cluster_5 | 2 | KRT7 | 1.7276 | 1.8416 | 0.8993 |
| cluster_13 | 2 | CALD1 | 1.6703 | 1.716 | 0.8182 |
| cluster_8 | 2 | SPP1 | 1.5746 | 1.6775 | 0.6733 |
| cluster_4 | 2 | NAMPT | 1.5517 | 2.9474 | 1 |
| cluster_17 | 2 | TUBB4B | 1.4725 | 1.6448 | 1 |
| cluster_2 | 2 | MALAT1 | 1.2791 | 5.1625 | 0.9761 |
| cluster_16 | 2 | LCN2 | 0.8818 | 0.993 | 0.5833 |
| cluster_11 | 3 | IGHA1 | 3.4828 | 3.9264 | 0.9032 |
| cluster_14 | 3 | TPSAB1 | 2.9387 | 2.9404 | 0.913 |
| cluster_6 | 3 | IGHG1 | 2.4528 | 2.6985 | 0.7213 |
| cluster_12 | 3 | RALGPS2 | 2.2902 | 2.4223 | 1 |
| cluster_15 | 3 | TUBA1B | 2.1398 | 2.4875 | 1 |
| cluster_1 | 3 | NAMPT | 1.8851 | 3.0285 | 1 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
LUSC-092-03-1A
Sample ID
LUSC-092-03-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Lung 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
Lung Squamous Cell Carcinoma; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (10X Genomics)
Cell Count
9,658
Analysis Status
Matrix available; UMAP generated
UMAP Status
Ready
Metadata / Source Notes
Project ID: LUSC-092; Cancer type: Lung Squamous Cell Carcinoma; Source: NCBI (SRA); Accession: PRJNA976462; Country: CHN; Sample type: Tumour; Protocol: 10X Genomics; Matrix: LUSC-092-03-1A.counts.matrix.tsv.gz (23.09 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=9658; raw genes=31005; Leiden clusters=17; 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
Lung Squamous Cell Carcinoma
cancer type short
LUSC
library count
1
library sample ids
LUSC-092-03-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (SRA); accession=PRJNA976462; downloaded 2026-07-06
data accession
PRJNA976462
project id
LUSC-092
sample type
Tumour
country
CHN
data source
NCBI (SRA)
accession no
PRJNA976462
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix available
matrix file name
LUSC-092-03-1A.counts.matrix.tsv.gz
matrix file size bytes
24215838
matrix file size mb
23.09
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=9658; raw_genes=31005; leiden_clusters=17; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated