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HNSCC-127-01-1A

De-identified Human Immune Atlas donor/sample detail for CancerSCEM 2.0. The record preserves available public metadata while avoiding direct identifiers.

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Donor-Level Analysis Results

Matrix-backed CancerSCEM donor analysis for HNSCC-127-01-1A, generated 2026-07-09 12:54:49 +0800.

2,000Cells analyzed
23Clusters
26,704Expressed genes
5126Mean UMI
1778Mean genes
5.237Mean mito %
Donor-level analysis panel
Cluster cell counts, cluster-by-program score heatmap, and top marker genes.
CancerSCEM Deep Analysis Donor JSON UMAP Coordinates UMAP Summary
Gene Program Summary
Program Clusters Mean Score Max Score Genes Used
Epithelial_tumor 23 0.4478 1.54 8
Myeloid_APC 23 0.4436 1.1073 9
Fibroblast_stroma 23 0.383 1.8305 8
B_plasma 23 0.2673 1.5376 8
T_NK_cytotoxic 23 0.1372 0.8506 10
Proliferation 23 0.1338 0.4877 7
Endothelial 23 0.1315 1.081 7
Checkpoint_exhaustion 23 0.0935 0.5613 8
Cluster QC
Cluster Cells Mean UMI Median Genes Mean Mito %
cluster_1 286 1430.7797 552 5.6677
cluster_2 200 7445.75 2557 4.8842
cluster_3 192 2739.8073 622 4.4486
cluster_4 175 7670.1714 2802 4.8595
cluster_5 169 6129.4793 2492 5.4688
cluster_6 153 3031.3072 927 4.1506
cluster_7 133 7309.5865 2594 6.3399
cluster_8 105 3313.7238 965 4.0799
cluster_9 76 9431.1316 3419.5 4.7493
cluster_10 65 11613.0923 3912 5.5349
cluster_11 62 3860.2419 595 5.7304
cluster_12 61 1099.8033 413 6.611
cluster_13 46 3423.0652 466.5 4.8071
cluster_14 44 4294.9091 1078 6.2542
cluster_15 43 2505.6977 687 5.8608
cluster_16 43 5860.1628 346 5.5917
cluster_17 38 1412.8684 414 6.8939
cluster_18 33 7055.1515 3499 5.2331
cluster_19 30 9806.3333 3605 6.7194
cluster_20 20 17582.75 3682 3.7245
cluster_21 14 10278 4000.5 5.7271
cluster_22 7 4953.7143 2424 7.3419
cluster_23 5 14146 4703 5.9811
Top Cluster Marker Genes
Cluster Rank Gene Score Mean Expr Detect Fraction
cluster_9 1 TPSB2 4.276 4.3499 0.9868
cluster_21 1 IGLC1 3.9936 4.1123 1
cluster_16 1 IGHG1 3.9694 4.0464 0.9535
cluster_6 1 CXCL8 3.5875 4.0833 1
cluster_23 1 CCL2 3.4127 3.525 1
cluster_13 1 S100A8 3.2779 4.5085 1
cluster_19 1 KRT14 3.2289 4.8944 1
cluster_20 1 CXCL8 3.12 3.859 0.85
cluster_3 1 S100A8 2.9233 3.9487 1
cluster_18 1 COL1A1 2.8392 3.12 1
cluster_7 1 HLA-DRA 2.7018 3.0195 0.9925
cluster_10 1 COL1A2 2.6455 2.8329 0.9385
cluster_15 1 DES 2.4826 2.5518 0.9767
cluster_22 1 TTN 2.4782 2.7655 1
cluster_17 1 CXCL8 2.4113 3.1356 0.9737
cluster_4 1 MALAT1 2.3657 5.666 1
cluster_2 1 MALAT1 2.2294 5.5138 0.995
cluster_5 1 CCL5 2.1066 2.1522 0.9586
cluster_8 1 S100A2 2.0079 3.5585 1
cluster_14 1 IGFBP7 1.6067 1.9264 0.8182
cluster_11 1 HLA-DRA 1.5981 2.046 0.8871
cluster_1 1 KRT14 1.5188 3.0156 0.979
cluster_12 1 HLA-DRA 0.3741 0.8601 0.6885
cluster_16 2 IGKC 3.8389 4.2368 0.7674
cluster_9 2 CPA3 3.4565 3.4809 1
cluster_21 2 MMP1 3.3758 3.713 1
cluster_13 2 S100A7 3.2776 4.2286 1
cluster_23 2 SERPINE1 3.0876 3.3267 1
cluster_20 2 NEAT1 3.0564 4.6077 1
cluster_19 2 S100A2 3.0081 4.619 1
cluster_3 2 FABP5 2.8879 3.6914 1
cluster_6 2 NAMPT 2.7218 3.3282 1
cluster_18 2 IGFBP7 2.6449 2.9563 1
cluster_10 2 COL3A1 2.6423 2.8257 0.8923
cluster_7 2 MALAT1 2.3701 5.7198 1
cluster_22 2 TNNT3 2.3408 2.4294 1
cluster_4 2 LDLRAD4 2.3265 2.8057 0.9886
cluster_15 2 TTN 2.3195 2.5656 0.8605
cluster_17 2 IL1B 1.9398 2.2511 0.9211
cluster_5 2 MALAT1 1.9325 5.2765 0.9941

Primary Metadata

Core de-identified metadata fields migrated from the ImmuneAging donor manifest.

Donor ID
HNSCC-127-01-1A
Sample ID
HNSCC-127-01-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Head and Neck 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
Head and Neck Squamous Cell Carcinoma; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (10X Genomics)
Cell Count
4,854
Analysis Status
Matrix available; UMAP generated
UMAP Status
Ready
Metadata / Source Notes
Project ID: HNSCC-127; Cancer type: Head and Neck Squamous Cell Carcinoma; Source: NCBI (GEO); Accession: GSE185965; Country: CHN; Sample type: Tumour; Protocol: 10X Genomics; Matrix: HNSCC-127-01-1A.counts.matrix.tsv.gz (11.58 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=4854; raw genes=29115; Leiden clusters=23; 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
Head and Neck Squamous Cell Carcinoma
cancer type short
HNSCC
library count
1
library sample ids
HNSCC-127-01-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (GEO); accession=GSE185965; downloaded 2026-07-06
data accession
GSE185965
project id
HNSCC-127
sample type
Tumour
country
CHN
data source
NCBI (GEO)
accession no
GSE185965
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix available
matrix file name
HNSCC-127-01-1A.counts.matrix.tsv.gz
matrix file size bytes
12144518
matrix file size mb
11.58
matrix download url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_matrix/HNSCC-127-01-1A.counts.matrix.tsv.gz
umap coordinates url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/HNSCC-127-01-1A.umap.tsv.gz
umap summary url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/HNSCC-127-01-1A.summary.json
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=4854; raw_genes=29115; leiden_clusters=23; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated