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SKCM-095-02-1A

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 SKCM-095-02-1A, generated 2026-07-09 12:54:49 +0800.

1,999Cells analyzed
21Clusters
23,975Expressed genes
4365Mean UMI
1650Mean genes
2.151Mean 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
B_plasma 21 0.4688 2.4191 8
T_NK_cytotoxic 21 0.4391 1.5222 10
Checkpoint_exhaustion 21 0.1648 0.5292 8
Myeloid_APC 21 0.1624 1.413 9
Proliferation 21 0.0571 0.1965 7
Endothelial 21 0.0286 0.2959 7
Fibroblast_stroma 21 0.025 0.3646 8
Epithelial_tumor 21 0.0099 0.0662 8
Cluster QC
Cluster Cells Mean UMI Median Genes Mean Mito %
cluster_1 270 1797.2778 1048 3.0212
cluster_2 182 3043.6813 1451.5 1.9863
cluster_3 181 4353.0884 1683 2.1679
cluster_4 164 2854.6646 1455 2.3949
cluster_5 146 4446.5274 1752.5 1.3629
cluster_6 141 5033.9504 1854 2.5183
cluster_7 137 3284.9416 1516 1.906
cluster_8 127 5174.6299 1992 1.6419
cluster_9 122 3185.2623 1561 2.452
cluster_10 90 3314.1778 1410.5 1.9122
cluster_11 87 4490.1149 1643 1.8102
cluster_12 75 4060.2133 1724 1.6375
cluster_13 63 10625.1587 2969 2.5118
cluster_14 62 20922.1129 2460 1.5286
cluster_15 46 3058.9565 1339.5 2.5062
cluster_16 42 3917.4286 1597 2.054
cluster_17 21 4964.8095 1965 2.0105
cluster_18 19 3448.7368 1548 1.6841
cluster_19 12 4279.25 1325.5 2.0366
cluster_20 6 844 458 0.5431
cluster_21 6 14030 3417 0.9695
Top Cluster Marker Genes
Cluster Rank Gene Score Mean Expr Detect Fraction
cluster_14 1 IGHG1 5.1937 5.4373 0.9839
cluster_13 1 HLA-DRA 3.5704 4.0776 1
cluster_21 1 HLA-DRA 3.3414 3.9512 1
cluster_10 1 TPSB2 3.2509 3.2678 1
cluster_17 1 GNLY 2.9347 3.1331 1
cluster_6 1 HLA-DRA 2.6005 3.0369 0.9929
cluster_5 1 CCL4 2.215 2.668 0.9178
cluster_20 1 CXCL8 2.0338 2.1388 0.8333
cluster_16 1 XCL1 1.7361 1.8347 0.8333
cluster_19 1 IGFBP7 1.5052 1.5328 0.75
cluster_8 1 IL32 1.4813 2.3065 0.9606
cluster_18 1 ISG15 1.3943 1.8916 0.9474
cluster_12 1 CXCL13 1.3882 1.4145 0.6
cluster_7 1 GZMK 1.3301 1.7236 0.9051
cluster_11 1 TNFAIP3 1.2629 2.1577 0.9655
cluster_9 1 CCL5 1.1622 2.0524 0.9672
cluster_3 1 HSPA1B 1.0486 1.9528 0.8895
cluster_15 1 IL7R 0.9623 1.7145 0.9348
cluster_2 1 IKZF2 0.898 1.1315 0.8242
cluster_4 1 ANK3 0.7339 1.317 0.8659
cluster_1 1 THEMIS 0.5295 1.0759 0.8
cluster_14 2 IGKC 5.0684 6.2087 1
cluster_13 2 LYZ 3.4279 3.4805 0.9365
cluster_21 2 GZMB 3.2319 3.4267 1
cluster_10 2 TPSAB1 3.0103 3.0241 0.9778
cluster_17 2 NKG7 2.4907 2.901 0.9524
cluster_6 2 CD74 2.2781 2.9774 0.9929
cluster_5 2 CCL5 1.8201 2.6482 0.9863
cluster_20 2 NAMPT 1.6921 2.114 1
cluster_16 2 XCL2 1.5377 1.6894 0.881
cluster_8 2 BATF 1.393 1.6799 0.874
cluster_19 2 S100A6 1.2218 2.336 0.8333
cluster_7 2 CCL5 1.1868 2.0665 0.9708
cluster_11 2 JUND 1.1354 2.6246 0.9885
cluster_3 2 JUN 1.0314 2.2316 0.9503
cluster_18 2 IFI44L 1.0112 1.2473 0.8947
cluster_12 2 NR3C1 0.9792 1.4866 0.84
cluster_15 2 RORA 0.8925 1.4045 0.913
cluster_2 2 LINC02694 0.7919 1.0588 0.7033
cluster_4 2 IL7R 0.6912 1.4088 0.8415

Primary Metadata

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

Donor ID
SKCM-095-02-1A
Sample ID
SKCM-095-02-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Melanoma
Age / Age Group
Pan-cancer Chinese cohort, per-donor ages not in CancerSCEM metadata
Sex
Not reported in public CancerSCEM metadata
Health Status
Melanoma; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (10X Genomics)
Cell Count
10,724
Analysis Status
Matrix available; UMAP generated
UMAP Status
Ready
Metadata / Source Notes
Project ID: SKCM-095; Cancer type: Melanoma; Source: NCBI (SRA); Accession: PRJNA996416; Country: CHN; Sample type: Tumour; Protocol: 10X Genomics; Matrix: SKCM-095-02-1A.counts.matrix.tsv.gz (21.13 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=10724; raw genes=27012; Leiden clusters=21; 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
Melanoma
cancer type short
SKCM
library count
1
library sample ids
SKCM-095-02-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (SRA); accession=PRJNA996416; downloaded 2026-07-06
data accession
PRJNA996416
project id
SKCM-095
sample type
Tumour
country
CHN
data source
NCBI (SRA)
accession no
PRJNA996416
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix available
matrix file name
SKCM-095-02-1A.counts.matrix.tsv.gz
matrix file size bytes
22161299
matrix file size mb
21.13
matrix download url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_matrix/SKCM-095-02-1A.counts.matrix.tsv.gz
umap coordinates url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/SKCM-095-02-1A.umap.tsv.gz
umap summary url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/SKCM-095-02-1A.summary.json
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=10724; raw_genes=27012; leiden_clusters=21; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated