BRCA-071-13-1A
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 BRCA-071-13-1A, generated 2026-07-09 12:54:49 +0800.
1,999Cells analyzed
21Clusters
19,540Expressed genes
6147Mean UMI
2095Mean genes
3.429Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| T_NK_cytotoxic | 21 | 0.8071 | 2.0182 | 10 |
| B_plasma | 21 | 0.5069 | 2.1262 | 8 |
| Myeloid_APC | 21 | 0.4464 | 2.0797 | 9 |
| Endothelial | 21 | 0.0919 | 0.4177 | 5 |
| Checkpoint_exhaustion | 21 | 0.0843 | 0.1732 | 8 |
| Proliferation | 21 | 0.0382 | 0.0959 | 7 |
| Fibroblast_stroma | 21 | 0.0132 | 0.0749 | 4 |
| Epithelial_tumor | 21 | 0.0042 | 0.0326 | 5 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 388 | 6707.4613 | 2040 | 2.6948 |
| cluster_2 | 317 | 7376.2145 | 2516 | 3.7079 |
| cluster_3 | 214 | 5521.3318 | 2037.5 | 3.1393 |
| cluster_4 | 203 | 5188.6502 | 2138 | 3.4352 |
| cluster_5 | 128 | 5818.8359 | 2137.5 | 2.8708 |
| cluster_6 | 117 | 4884.2479 | 1937 | 3.5729 |
| cluster_7 | 102 | 9255.2941 | 3012.5 | 4.0034 |
| cluster_8 | 100 | 5671.61 | 1955 | 3.3492 |
| cluster_9 | 98 | 4752.2653 | 1672 | 3.3673 |
| cluster_10 | 75 | 2531.1867 | 1491 | 6.7676 |
| cluster_11 | 74 | 6827.1081 | 2045 | 3.6424 |
| cluster_12 | 62 | 5734.4194 | 1974 | 4.1564 |
| cluster_13 | 29 | 4762.6552 | 1899 | 3.3456 |
| cluster_14 | 19 | 5388.2632 | 1883 | 3.1261 |
| cluster_15 | 18 | 6424.7222 | 1978 | 2.7879 |
| cluster_16 | 17 | 3106.7059 | 624 | 2.5488 |
| cluster_17 | 13 | 5621 | 2145 | 2.9745 |
| cluster_18 | 9 | 16227.2222 | 3888 | 3.7525 |
| cluster_19 | 6 | 5539.5 | 2003 | 3.9189 |
| cluster_20 | 5 | 552 | 363 | 1.2506 |
| cluster_21 | 5 | 20897.6 | 3611 | 3.8607 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_2 | 1 | S100A8 | 4.5322 | 4.7262 | 1 |
| cluster_21 | 1 | JCHAIN | 4.0506 | 4.1078 | 1 |
| cluster_18 | 1 | CST3 | 3.8327 | 4.5874 | 1 |
| cluster_6 | 1 | GNLY | 3.299 | 3.9437 | 0.9915 |
| cluster_7 | 1 | IFI30 | 2.996 | 3.6642 | 0.9902 |
| cluster_19 | 1 | GNLY | 2.8857 | 3.7148 | 1 |
| cluster_17 | 1 | TRBV3-1 | 2.8031 | 2.8354 | 1 |
| cluster_16 | 1 | PPBP | 2.6309 | 2.6982 | 1 |
| cluster_4 | 1 | NKG7 | 2.5348 | 3.7309 | 1 |
| cluster_13 | 1 | TRBV10-2 | 2.5142 | 2.5326 | 1 |
| cluster_5 | 1 | NKG7 | 2.243 | 3.5529 | 1 |
| cluster_11 | 1 | HLA-DRA | 2.2156 | 3.1752 | 0.9865 |
| cluster_9 | 1 | CD74 | 2.1723 | 4.6277 | 1 |
| cluster_3 | 1 | CCL5 | 2.0331 | 3.248 | 1 |
| cluster_1 | 1 | LTB | 1.828 | 2.5751 | 1 |
| cluster_15 | 1 | TRBV7-6 | 1.7193 | 1.7267 | 1 |
| cluster_12 | 1 | GZMK | 1.649 | 1.954 | 0.9516 |
| cluster_14 | 1 | IL32 | 1.4717 | 3.0081 | 1 |
| cluster_20 | 1 | NEAT1 | 1.4409 | 2.1445 | 1 |
| cluster_8 | 1 | CD8B | 1.2886 | 1.6264 | 0.94 |
| cluster_10 | 1 | ARHGAP15 | 1.2377 | 1.9896 | 0.9733 |
| cluster_2 | 2 | S100A9 | 3.7402 | 3.9523 | 0.9811 |
| cluster_18 | 2 | LYZ | 3.6346 | 4.3481 | 1 |
| cluster_21 | 2 | MZB1 | 3.1367 | 3.165 | 1 |
| cluster_7 | 2 | LST1 | 2.9075 | 3.3115 | 0.9902 |
| cluster_19 | 2 | TRBV12-4 | 2.3743 | 2.3862 | 1 |
| cluster_4 | 2 | GNLY | 2.2693 | 2.8766 | 0.8424 |
| cluster_6 | 2 | NKG7 | 2.1809 | 3.5067 | 1 |
| cluster_11 | 2 | CD74 | 2.1734 | 4.6547 | 1 |
| cluster_9 | 2 | HLA-DRA | 2.1617 | 3.0973 | 1 |
| cluster_5 | 2 | CCL5 | 2.1285 | 3.4247 | 1 |
| cluster_16 | 2 | NRGN | 2.0426 | 2.1976 | 1 |
| cluster_17 | 2 | GZMH | 1.9996 | 2.6999 | 1 |
| cluster_3 | 2 | NKG7 | 1.9983 | 3.2379 | 0.9907 |
| cluster_13 | 2 | GNLY | 1.9192 | 2.7291 | 1 |
| cluster_1 | 2 | IL7R | 1.6407 | 2.0542 | 0.9459 |
| cluster_12 | 2 | KLRB1 | 1.637 | 2.0552 | 0.9194 |
| cluster_15 | 2 | TRBV7-5 | 1.5575 | 1.5589 | 0.8333 |
| cluster_8 | 2 | IL7R | 1.1784 | 1.8514 | 0.98 |
| cluster_20 | 2 | NAMPT | 1.1766 | 1.3102 | 0.8 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
BRCA-071-13-1A
Sample ID
BRCA-071-13-1A
Dataset
CancerSCEM 2.0
Cohort
CancerSCEM 2.0 Chinese subset; Breast Cancer
Age / Age Group
Pan-cancer Chinese cohort, per-donor ages not in CancerSCEM metadata
Sex
Not reported in public CancerSCEM metadata
Health Status
Breast Cancer; PBMC
Tissue / Cell Source
PBMC
Modality
scRNA-seq (10X Genomics)
Cell Count
6,037
Analysis Status
Matrix available; UMAP generated
UMAP Status
Ready
Metadata / Source Notes
Project ID: BRCA-071; Cancer type: Breast Cancer; Source: NGDC (GSA-human); Accession: PRJCA008495; Country: CHN; Sample type: PBMC; Protocol: 10X Genomics; Matrix: BRCA-071-13-1A.counts.matrix.tsv.gz (13.09 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=6037; raw genes=20360; 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
Breast Cancer
cancer type short
BRCA
library count
1
library sample ids
BRCA-071-13-1A
source reference
CancerSCEM 2.0 metadata table; data source=NGDC (GSA-human); accession=PRJCA008495; downloaded 2026-07-06
data accession
PRJCA008495
project id
BRCA-071
sample type
PBMC
country
CHN
data source
NGDC (GSA-human)
accession no
PRJCA008495
construction protocol
10X Genomics
transcriptome profile
Yes
metabolic profile
Yes
matrix status
Matrix available
matrix file name
BRCA-071-13-1A.counts.matrix.tsv.gz
matrix file size bytes
13725274
matrix file size mb
13.09
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=6037; raw_genes=20360; leiden_clusters=21; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated