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PTC-069-05-1A

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 PTC-069-05-1A, generated 2026-07-09 12:54:49 +0800.

1,999Cells analyzed
20Clusters
25,564Expressed genes
8248Mean UMI
2302Mean genes
3.308Mean 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 20 0.5783 2.0398 8
Fibroblast_stroma 20 0.2146 1.3401 8
T_NK_cytotoxic 20 0.2092 1.0025 10
Myeloid_APC 20 0.2085 1.7203 9
Checkpoint_exhaustion 20 0.1878 0.6967 8
Endothelial 20 0.0949 0.9087 7
Epithelial_tumor 20 0.0743 0.4453 7
Proliferation 20 0.0573 0.1018 7
Cluster QC
Cluster Cells Mean UMI Median Genes Mean Mito %
cluster_1 208 8930.9712 2851 3.2773
cluster_2 181 5911.3204 2325 3.8725
cluster_3 177 16901.5819 2163 2.4746
cluster_4 176 8134.2955 2545 3.9219
cluster_5 162 2404.0864 853.5 3.6148
cluster_6 139 3576.7914 307 1.2724
cluster_7 130 12571.0769 4116 4.664
cluster_8 127 9053.9606 2925 3.5746
cluster_9 111 6476.1351 2251 3.2867
cluster_10 96 7982 2792 3.6387
cluster_11 83 8761.1566 2861 2.6652
cluster_12 77 1378.2987 543 2.1926
cluster_13 70 10706.4143 2961.5 3.7692
cluster_14 66 11838.5 3771 4.5457
cluster_15 60 4315.8833 809.5 1.9594
cluster_16 53 7388.0943 1240 3.3831
cluster_17 47 18722.4894 4255 4.2863
cluster_18 20 744.45 415.5 2.4239
cluster_19 9 7336.6667 2331 5.6623
cluster_20 7 675.8571 525 1.7889
Top Cluster Marker Genes
Cluster Rank Gene Score Mean Expr Detect Fraction
cluster_3 1 IGKC 4.2475 5.9039 0.9944
cluster_6 1 IGKC 3.8533 5.6178 0.9496
cluster_7 1 RGS5 3.7574 3.9571 0.9615
cluster_19 1 TPSB2 3.7011 3.7011 1
cluster_14 1 IGFBP7 3.5416 4.1367 1
cluster_17 1 HLA-DRA 3.5078 4.0422 0.9362
cluster_18 1 IGLC2 3.1781 3.5732 1
cluster_13 1 HLA-DRA 3.0183 3.5295 1
cluster_8 1 GNLY 2.4704 2.5275 0.8425
cluster_16 1 IGFBP7 2.3576 3.0071 0.9434
cluster_1 1 LDLRAD4 2.1032 2.8372 0.9952
cluster_11 1 CXCL13 1.9631 2.0144 0.7952
cluster_15 1 S100A6 1.9328 2.9331 0.9333
cluster_12 1 HLA-DRA 1.8486 2.3943 0.961
cluster_10 1 CCL5 1.811 2.4169 0.9375
cluster_9 1 FLT1 1.6916 1.749 0.7838
cluster_4 1 IL7R 1.6271 2.0243 0.9432
cluster_20 1 CXCL8 1.31 1.409 1
cluster_2 1 CCL5 1.3006 1.8758 0.8674
cluster_5 1 TTN 0.5109 0.7601 0.4938
cluster_3 2 IGHG1 4.1925 4.988 0.9774
cluster_7 2 IGFBP7 3.5988 4.0767 0.9923
cluster_6 2 IGHG1 3.5726 4.4909 0.9209
cluster_14 2 CALD1 3.2003 3.5616 1
cluster_17 2 CD74 3.1927 4.1822 0.9787
cluster_19 2 TPSAB1 2.9364 2.9371 1
cluster_13 2 CD74 2.4308 3.4102 1
cluster_18 2 IGHA2 2.415 2.5087 1
cluster_16 2 MGP 2.2987 2.6576 0.8679
cluster_8 2 CCL5 2.131 2.6886 0.9843
cluster_11 2 TSHZ2 1.9157 2.4049 0.9157
cluster_1 2 IKZF2 1.7836 1.9584 0.8894
cluster_12 2 FTL 1.7073 3.4624 1
cluster_10 2 TOX 1.6783 2.1806 0.9271
cluster_9 2 PLCB1 1.6552 1.8375 0.7297
cluster_4 2 BACH2 1.5598 2.1668 0.858
cluster_2 2 THEMIS 1.092 1.3569 0.7459
cluster_15 2 FN1 0.9822 1.5712 0.7833
cluster_20 2 CCL4L2 0.9698 1.08 1
cluster_5 2 TNF 0.4658 0.6684 0.5

Primary Metadata

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

Donor ID
PTC-069-05-1A
Sample ID
PTC-069-05-1A
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
2,856
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-069-05-1A.counts.matrix.tsv.gz (8.32 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=2856; raw genes=27092; Leiden clusters=20; 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-069-05-1A
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-069-05-1A.counts.matrix.tsv.gz
matrix file size bytes
8725227
matrix file size mb
8.32
matrix download url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_matrix/PTC-069-05-1A.counts.matrix.tsv.gz
umap coordinates url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/PTC-069-05-1A.umap.tsv.gz
umap summary url
http://8.142.154.29/LACA/data/human_immune_atlas/cancerscem_2_umap/PTC-069-05-1A.summary.json
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=2856; raw_genes=27092; leiden_clusters=20; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated