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ESCC-111-09-1A

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

1,998Cells analyzed
21Clusters
23,819Expressed genes
7036Mean UMI
2191Mean genes
3.422Mean 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 0.4136 2.4211 8
T_NK_cytotoxic 21 0.3528 1.9243 10
Proliferation 21 0.2507 1.6888 7
Epithelial_tumor 21 0.2009 0.9501 8
Myeloid_APC 21 0.1531 1.2958 9
Checkpoint_exhaustion 21 0.1135 0.5643 8
Fibroblast_stroma 21 0.0839 0.9877 8
Endothelial 21 0.06 0.4777 7
Cluster QC
Cluster Cells Mean UMI Median Genes Mean Mito %
cluster_1 435 2232.8414 1234 3.5738
cluster_2 421 13287.7435 4217 3.9154
cluster_3 173 6473.4971 2087 3.0339
cluster_4 150 7367.8267 2738.5 2.7231
cluster_5 116 6057.6034 2054 2.7812
cluster_6 104 1803.1827 794 3.9798
cluster_7 103 1207.2718 635 4.3125
cluster_8 90 20409.0444 2172.5 1.4924
cluster_9 83 4531.4819 1220 3.3473
cluster_10 78 8388.8846 2560 3.0783
cluster_11 69 3513.9565 1737 2.8669
cluster_12 32 14796.5625 4035 3.6571
cluster_13 24 1122.25 779 5.4708
cluster_14 22 5283.7273 1906.5 3.4291
cluster_16 17 1102.3529 643 5.1891
cluster_15 17 3356.4118 1385 4.2865
cluster_17 15 13526.1333 1558 1.6016
cluster_18 15 11038.8 3652 3.7706
cluster_19 12 2727.1667 619 3.6093
cluster_20 11 1342.0909 514 4.1433
cluster_21 11 3144.2727 893 1.4956
Top Cluster Marker Genes
Cluster Rank Gene Score Mean Expr Detect Fraction
cluster_17 1 IGHV3-7 6.7697 6.8058 1
cluster_8 1 IGHG1 5.6235 5.6786 0.9556
cluster_14 1 GNLY 3.6209 3.8619 1
cluster_12 1 TMSB4X 3.4894 5.0896 1
cluster_2 1 A2M 3.4481 3.7895 0.9929
cluster_3 1 CCL5 3.1146 3.3199 0.9942
cluster_10 1 IL32 2.6866 3.4077 1
cluster_9 1 IL1B 2.6194 2.6323 0.8434
cluster_5 1 TMSB4X 2.6007 4.1059 1
cluster_18 1 WFDC2 2.5846 3.5021 1
cluster_6 1 DCN 2.357 2.3719 0.9135
cluster_15 1 RARRES1 2.2648 2.3609 0.9412
cluster_20 1 TPSAB1 2.2626 2.2645 0.9091
cluster_16 1 RGS5 1.9732 1.9875 0.8235
cluster_19 1 CD74 1.8611 3.3339 1
cluster_4 1 KRT17 1.3512 2.2802 0.84
cluster_1 1 IFI27 1.2749 1.5085 0.9034
cluster_21 1 SERPINB9 1.2683 1.5159 0.7273
cluster_11 1 IFI27 1.1554 1.6267 0.8696
cluster_7 1 IGFBP7 0.9801 1.7392 0.9223
cluster_13 1 XIST 0.7088 0.8055 0.7917
cluster_17 2 IGHA1 6.37 6.4198 1
cluster_8 2 IGLV3-10 3.7592 4.0536 0.8333
cluster_2 2 WFDC2 3.0382 3.3349 0.9952
cluster_12 2 COTL1 2.9463 3.4914 1
cluster_3 2 NKG7 2.6196 2.7365 0.9653
cluster_9 2 LYZ 2.4633 2.4693 0.8916
cluster_10 2 TMSB4X 2.4462 4.0069 1
cluster_18 2 HMGN2 2.2588 3.165 1
cluster_14 2 NKG7 2.2542 2.573 0.9545
cluster_20 2 CPA3 1.8408 1.842 0.9091
cluster_15 2 IFI27 1.8325 2.3281 1
cluster_5 2 SRGN 1.787 2.4211 0.9741
cluster_16 2 IGFBP7 1.7467 2.5415 1
cluster_19 2 HLA-DRA 1.6362 2.2389 0.9167
cluster_6 2 LUM 1.5219 1.5252 0.8365
cluster_21 2 AC012447.1 1.2125 1.2564 0.6364
cluster_4 2 HSPB1 1.0769 2.6162 0.9333
cluster_11 2 TUBA1B 0.9803 1.7347 0.9275
cluster_7 2 ACKR1 0.949 0.9505 0.6311

Primary Metadata

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

Donor ID
ESCC-111-09-1A
Sample ID
ESCC-111-09-1A
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
5,362
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-111-09-1A.counts.matrix.tsv.gz (13.83 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=5362; raw genes=25006; 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
Esophageal Squamous Cell Carcinoma
cancer type short
ESCC
library count
1
library sample ids
ESCC-111-09-1A
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-111-09-1A.counts.matrix.tsv.gz
matrix file size bytes
14501112
matrix file size mb
13.83
matrix download url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_matrix/ESCC-111-09-1A.counts.matrix.tsv.gz
umap coordinates url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/ESCC-111-09-1A.umap.tsv.gz
umap summary url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/ESCC-111-09-1A.summary.json
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=5362; raw_genes=25006; leiden_clusters=21; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated