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ESCC-111-38-1A

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 ESCC-111-38-1A, generated 2026-07-09 12:54:49 +0800.

2,000Cells analyzed
19Clusters
22,902Expressed genes
8013Mean UMI
2418Mean genes
4.107Mean 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 19 0.6096 2.0385 8
T_NK_cytotoxic 19 0.5017 1.759 10
Myeloid_APC 19 0.2864 1.4998 9
Checkpoint_exhaustion 19 0.2444 0.7612 8
Epithelial_tumor 19 0.189 2.1665 8
Proliferation 19 0.1568 1.4161 7
Fibroblast_stroma 19 0.1213 2.1026 8
Endothelial 19 0.104 1.1698 7
Cluster QC
Cluster Cells Mean UMI Median Genes Mean Mito %
cluster_1 486 5856.6523 1925.5 4.5083
cluster_2 311 15295.4469 4249 5.8172
cluster_3 183 5945.1311 1904 3.8364
cluster_4 152 4900.4868 1871.5 3.9842
cluster_5 138 6000.2971 2384.5 3.4969
cluster_6 133 7518.594 2525 3.4434
cluster_7 112 6863.1875 2453.5 4.2321
cluster_8 110 10849.0818 2398 2.6741
cluster_9 60 5401.2 2230 3.496
cluster_10 58 1221.8621 619.5 2.7701
cluster_11 48 11983.4792 3823.5 2.8687
cluster_12 46 7805.0652 1615 3.3346
cluster_13 42 7935 2841.5 3.2158
cluster_14 28 16369.6071 1615 1.7814
cluster_15 27 11447.3333 3441 4.8569
cluster_16 23 4895.2609 1919 4.91
cluster_17 20 1543.75 482 1.6878
cluster_18 13 7546.3077 2158 4.268
cluster_19 10 12849.5 3343 1.8614
Top Cluster Marker Genes
Cluster Rank Gene Score Mean Expr Detect Fraction
cluster_15 1 IGFBP4 4.1139 4.4254 1
cluster_2 1 KRT15 3.955 3.9765 0.9614
cluster_14 1 JCHAIN 3.7382 3.8435 0.8571
cluster_18 1 TPSAB1 3.6026 3.6047 1
cluster_12 1 S100A9 3.4523 3.8631 0.9565
cluster_19 1 GPR183 3.2683 3.8091 1
cluster_9 1 CCL5 2.8263 3.53 1
cluster_16 1 IGFBP7 2.8191 3.0408 0.913
cluster_8 1 IFI30 2.6981 3.1728 0.9727
cluster_7 1 GNLY 2.676 3.1717 0.8482
cluster_5 1 CCL5 2.659 3.2641 0.971
cluster_6 1 IL32 2.4882 3.5644 1
cluster_11 1 STMN1 2.3545 2.6706 0.9792
cluster_17 1 CCL4L2 2.2452 2.4784 0.9
cluster_1 1 CD79A 2.0796 2.2563 0.9835
cluster_13 1 BACH2 2.0442 2.5551 0.9762
cluster_4 1 CCL5 1.8496 2.4976 0.9868
cluster_3 1 SRGN 1.191 2.5722 0.9836
cluster_10 1 CROCC 0.7745 0.8468 0.7069
cluster_15 2 DCN 4.0515 4.064 1
cluster_2 2 KRT19 3.8599 3.939 0.9839
cluster_18 2 TPSB2 3.2636 3.2651 1
cluster_12 2 SPRR3 3.1528 3.154 0.8913
cluster_19 2 NR4A3 3.0512 3.5866 1
cluster_14 2 MZB1 2.6277 2.7122 0.9286
cluster_5 2 GNLY 2.5481 3.0179 0.8188
cluster_8 2 CST3 2.5287 2.9384 0.9182
cluster_9 2 TRBV24-1 2.3561 2.3745 1
cluster_16 2 ACKR1 2.1711 2.1729 0.8261
cluster_7 2 GZMA 2.1337 2.5056 0.7679
cluster_17 2 CCL3L1 2.1263 2.2175 0.95
cluster_6 2 BATF 2.0898 2.3859 0.985
cluster_11 2 HIST1H4C 2.0762 2.6673 0.8333
cluster_1 2 HLA-DRA 1.9949 3.3036 0.9959
cluster_13 2 CD79A 1.8725 2.5152 0.9762
cluster_4 2 NKG7 1.7453 2.2005 0.9342
cluster_3 2 IL7R 1.156 1.3985 0.765
cluster_10 2 Z93241.1 0.7452 0.7907 0.6379
cluster_15 3 TIMP1 3.9389 4.3263 1
cluster_2 3 KRT5 3.6068 3.6423 0.9871

Primary Metadata

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

Donor ID
ESCC-111-38-1A
Sample ID
ESCC-111-38-1A
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
2,453
Analysis Status
Matrix available; UMAP generated
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-111-38-1A.counts.matrix.tsv.gz (6.77 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=2453; raw genes=23549; Leiden clusters=19; 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
Esophageal Squamous Cell Carcinoma
cancer type short
ESCC
library count
1
library sample ids
ESCC-111-38-1A
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 available
matrix file name
ESCC-111-38-1A.counts.matrix.tsv.gz
matrix file size bytes
7098692
matrix file size mb
6.77
matrix download url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_matrix/ESCC-111-38-1A.counts.matrix.tsv.gz
umap coordinates url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/ESCC-111-38-1A.umap.tsv.gz
umap summary url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/ESCC-111-38-1A.summary.json
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=2453; raw_genes=23549; leiden_clusters=19; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated