PTC-069-04-1A
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 PTC-069-04-1A, generated 2026-07-09 12:54:49 +0800.
2,000Cells analyzed
14Clusters
26,064Expressed genes
8098Mean UMI
3061Mean genes
3.229Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| Epithelial_tumor | 14 | 0.5998 | 1.5356 | 7 |
| T_NK_cytotoxic | 14 | 0.1329 | 0.9892 | 10 |
| Myeloid_APC | 14 | 0.1263 | 1.4156 | 9 |
| Endothelial | 14 | 0.1243 | 1.1457 | 7 |
| Checkpoint_exhaustion | 14 | 0.0956 | 0.2228 | 8 |
| B_plasma | 14 | 0.0949 | 0.4882 | 7 |
| Fibroblast_stroma | 14 | 0.0874 | 1.0214 | 8 |
| Proliferation | 14 | 0.0678 | 0.1159 | 7 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 309 | 9539.8867 | 3522 | 2.7401 |
| cluster_2 | 305 | 10350.8066 | 3913 | 2.6845 |
| cluster_3 | 269 | 9875.3123 | 3656 | 3.8274 |
| cluster_4 | 264 | 10451.1326 | 4137 | 2.613 |
| cluster_5 | 217 | 9032.0783 | 3626 | 3.2363 |
| cluster_6 | 190 | 3284.0842 | 1577.5 | 3.9474 |
| cluster_7 | 85 | 4964.0824 | 2166 | 5.0107 |
| cluster_8 | 82 | 3767.5 | 1559 | 3.9233 |
| cluster_9 | 81 | 3980.4938 | 1552 | 1.7278 |
| cluster_10 | 68 | 8343.1912 | 2780.5 | 3.9512 |
| cluster_11 | 52 | 3318.2692 | 1584.5 | 3.9042 |
| cluster_12 | 49 | 4105.5714 | 2119 | 4.0203 |
| cluster_13 | 23 | 2253.4348 | 771 | 1.8608 |
| cluster_14 | 6 | 7707.6667 | 3308.5 | 3.7934 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_10 | 1 | HLA-DRA | 3.606 | 3.7106 | 0.9118 |
| cluster_7 | 1 | IGFBP7 | 3.4663 | 3.8857 | 1 |
| cluster_14 | 1 | TFF3 | 2.9353 | 2.9647 | 0.8333 |
| cluster_11 | 1 | GNLY | 2.4361 | 2.4528 | 0.9231 |
| cluster_12 | 1 | IGFBP7 | 2.3687 | 2.8774 | 0.9796 |
| cluster_6 | 1 | CCL5 | 1.9797 | 2.0755 | 0.9421 |
| cluster_3 | 1 | CAV1 | 1.6412 | 2.4968 | 0.948 |
| cluster_5 | 1 | RMST | 1.5122 | 2.3595 | 0.9908 |
| cluster_2 | 1 | TG | 1.4456 | 4.0505 | 0.9967 |
| cluster_4 | 1 | INTS6 | 1.3794 | 2.538 | 0.9962 |
| cluster_1 | 1 | NPC2 | 1.3221 | 3.5972 | 0.9968 |
| cluster_8 | 1 | SRGN | 1.1711 | 1.5128 | 0.8293 |
| cluster_13 | 1 | GYS1 | 0.7946 | 1.0266 | 0.6957 |
| cluster_9 | 1 | MT2A | 0.3658 | 1.2709 | 0.7778 |
| cluster_10 | 2 | HLA-DRB1 | 3.2343 | 3.4131 | 0.9118 |
| cluster_7 | 2 | RGS5 | 2.4781 | 2.487 | 0.8824 |
| cluster_14 | 2 | MT1G | 2.2746 | 2.3626 | 0.8333 |
| cluster_12 | 2 | SPARCL1 | 2.151 | 2.266 | 0.898 |
| cluster_11 | 2 | NKG7 | 2.0354 | 2.1153 | 0.9808 |
| cluster_6 | 2 | SRGN | 1.6987 | 1.927 | 0.9526 |
| cluster_3 | 2 | FN1 | 1.5982 | 3.1417 | 0.9888 |
| cluster_2 | 2 | JUN | 1.4036 | 3.7477 | 0.9967 |
| cluster_5 | 2 | TG | 1.3871 | 4.0619 | 1 |
| cluster_4 | 2 | TG | 1.3379 | 3.9866 | 0.9962 |
| cluster_1 | 2 | FOS | 1.2546 | 3.5119 | 0.9968 |
| cluster_8 | 2 | IL32 | 1.0602 | 1.2887 | 0.8659 |
| cluster_13 | 2 | EIF2B3 | 0.6212 | 1.1269 | 0.7826 |
| cluster_9 | 2 | MT1G | 0.3384 | 0.4195 | 0.2593 |
| cluster_10 | 3 | CD74 | 2.965 | 3.3707 | 0.9118 |
| cluster_7 | 3 | SPARCL1 | 2.2998 | 2.3697 | 0.9647 |
| cluster_12 | 3 | A2M | 2.0305 | 2.1278 | 0.9796 |
| cluster_14 | 3 | ZNF804B | 1.934 | 1.962 | 1 |
| cluster_11 | 3 | CCL5 | 1.9054 | 2.1397 | 0.9615 |
| cluster_6 | 3 | CCL4 | 1.6794 | 1.7986 | 0.8 |
| cluster_3 | 3 | IGFBP7 | 1.5252 | 1.8868 | 0.8067 |
| cluster_2 | 3 | KAZN | 1.3593 | 2.4403 | 0.9541 |
| cluster_4 | 3 | NPC2 | 1.2993 | 3.6071 | 0.9962 |
| cluster_1 | 3 | TG | 1.2447 | 3.8777 | 1 |
| cluster_5 | 3 | KAZN | 1.1481 | 2.3118 | 0.9539 |
| cluster_8 | 3 | PTPRC | 1.0593 | 1.3421 | 0.8902 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
PTC-069-04-1A
Sample ID
PTC-069-04-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Papillary Thyroid Carcinoma
Age / Age Group
Pan-cancer Chinese cohort, per-donor ages not in CancerSCEM metadata
Sex
Not reported in public CancerSCEM metadata
Health Status
Papillary Thyroid Carcinoma; Tumour
Tissue / Cell Source
Tumour
Modality
scRNA-seq (10X Genomics)
Cell Count
4,121
Analysis Status
Matrix available; UMAP generated
UMAP Status
Ready
Metadata / Source Notes
Project ID: PTC-069; Cancer type: Papillary Thyroid Carcinoma; Source: NCBI (GEO); Accession: GSE191288; Country: CHN; Sample type: Tumour; Protocol: 10X Genomics; Matrix: PTC-069-04-1A.counts.matrix.tsv.gz (13.21 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=4121; raw genes=27424; Leiden clusters=14; 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
Papillary Thyroid Carcinoma
cancer type short
PTC
library count
1
library sample ids
PTC-069-04-1A
source reference
CancerSCEM 2.0 metadata table; data source=NCBI (GEO); accession=GSE191288; downloaded 2026-07-06
data accession
GSE191288
project id
PTC-069
sample type
Tumour
country
CHN
data source
NCBI (GEO)
accession no
GSE191288
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix available
matrix file name
PTC-069-04-1A.counts.matrix.tsv.gz
matrix file size bytes
13849357
matrix file size mb
13.21
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=4121; raw_genes=27424; leiden_clusters=14; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated