BRCA-071-16-1A
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-071-16-1A, generated 2026-07-09 12:54:49 +0800.
1,998Cells analyzed
19Clusters
23,362Expressed genes
7255Mean UMI
2094Mean genes
4.129Mean mito %
Gene Program Summary
| Program | Clusters | Mean Score | Max Score | Genes Used |
|---|---|---|---|---|
| B_plasma | 19 | 0.5505 | 2.4914 | 8 |
| Fibroblast_stroma | 19 | 0.3782 | 3.1719 | 8 |
| Myeloid_APC | 19 | 0.2866 | 1.7692 | 9 |
| T_NK_cytotoxic | 19 | 0.2451 | 1.3081 | 10 |
| Epithelial_tumor | 19 | 0.1567 | 1.7472 | 8 |
| Proliferation | 19 | 0.1328 | 1.5517 | 7 |
| Endothelial | 19 | 0.1098 | 0.7544 | 7 |
| Checkpoint_exhaustion | 19 | 0.1028 | 0.4007 | 8 |
Cluster QC
| Cluster | Cells | Mean UMI | Median Genes | Mean Mito % |
|---|---|---|---|---|
| cluster_1 | 376 | 5321.2021 | 1778 | 3.3799 |
| cluster_2 | 303 | 3616.0528 | 1457 | 4.2246 |
| cluster_3 | 189 | 4960.0741 | 1691 | 5.0788 |
| cluster_4 | 185 | 10343.7622 | 3087 | 4.7551 |
| cluster_5 | 166 | 5278.506 | 1766.5 | 3.558 |
| cluster_6 | 122 | 4775.8361 | 1747.5 | 3.8122 |
| cluster_7 | 109 | 14781.6881 | 3162 | 3.9498 |
| cluster_8 | 92 | 4499.337 | 1739.5 | 4.4324 |
| cluster_9 | 90 | 10564.2 | 2886.5 | 4.4258 |
| cluster_10 | 59 | 7563.0678 | 2483 | 3.4597 |
| cluster_11 | 55 | 27505.6545 | 2582 | 1.7461 |
| cluster_12 | 44 | 8396.0227 | 2487.5 | 6.3521 |
| cluster_13 | 42 | 14566.5476 | 3468.5 | 5.9583 |
| cluster_14 | 41 | 4789.3659 | 1860 | 4.8066 |
| cluster_15 | 38 | 14329.1842 | 4010 | 3.8649 |
| cluster_16 | 36 | 2979.1111 | 781.5 | 4.6014 |
| cluster_17 | 28 | 1838.9286 | 541 | 5.5707 |
| cluster_18 | 15 | 10463.2 | 3052 | 2.5516 |
| cluster_19 | 8 | 14488.375 | 3853 | 4.1009 |
Top Cluster Marker Genes
| Cluster | Rank | Gene | Score | Mean Expr | Detect Fraction |
|---|---|---|---|---|---|
| cluster_13 | 1 | MGP | 5.1803 | 6.0786 | 0.9762 |
| cluster_11 | 1 | JCHAIN | 4.664 | 4.7278 | 0.8 |
| cluster_15 | 1 | DCN | 4.4739 | 4.9045 | 1 |
| cluster_7 | 1 | CST3 | 4.3795 | 5.1414 | 1 |
| cluster_4 | 1 | DCN | 4.1232 | 4.2571 | 0.9838 |
| cluster_12 | 1 | TAGLN | 3.8581 | 4.0841 | 0.9773 |
| cluster_18 | 1 | GZMB | 3.6722 | 3.7686 | 1 |
| cluster_9 | 1 | CST3 | 3.0587 | 3.9217 | 0.9778 |
| cluster_14 | 1 | IGHV1-2 | 2.9263 | 2.9402 | 1 |
| cluster_8 | 1 | GNLY | 2.8137 | 2.85 | 0.8804 |
| cluster_19 | 1 | STMN1 | 2.6246 | 2.8012 | 1 |
| cluster_3 | 1 | CD74 | 2.4733 | 4.4083 | 0.9947 |
| cluster_10 | 1 | AZGP1 | 2.3604 | 2.4667 | 0.8814 |
| cluster_2 | 1 | CCL5 | 1.9896 | 2.3045 | 0.9076 |
| cluster_17 | 1 | TPSAB1 | 1.9106 | 1.9175 | 0.9286 |
| cluster_16 | 1 | FABP4 | 1.8916 | 1.94 | 0.8056 |
| cluster_1 | 1 | IL7R | 1.747 | 2.344 | 0.9787 |
| cluster_6 | 1 | IL32 | 1.743 | 2.8165 | 0.9836 |
| cluster_5 | 1 | IL32 | 1.1581 | 2.2418 | 0.9699 |
| cluster_13 | 2 | SCGB2A2 | 4.3405 | 4.4527 | 0.8571 |
| cluster_15 | 2 | COL1A1 | 4.3298 | 4.5787 | 1 |
| cluster_7 | 2 | HLA-DRA | 4.2222 | 5.0128 | 1 |
| cluster_11 | 2 | IGHA1 | 4.0727 | 4.1555 | 0.8 |
| cluster_4 | 2 | MGP | 4.0623 | 4.6934 | 0.9946 |
| cluster_12 | 2 | IGFBP7 | 3.7516 | 4.1029 | 1 |
| cluster_18 | 2 | CD74 | 3.3472 | 5.4911 | 1 |
| cluster_14 | 2 | IGKV3-20 | 2.8841 | 2.9845 | 1 |
| cluster_9 | 2 | HLA-DRA | 2.8052 | 3.6997 | 0.9667 |
| cluster_8 | 2 | NKG7 | 2.4619 | 2.7017 | 0.9783 |
| cluster_3 | 2 | HLA-DRA | 2.3554 | 3.1535 | 0.9788 |
| cluster_19 | 2 | TUBA1B | 2.3447 | 3.0539 | 1 |
| cluster_10 | 2 | ANKRD30A | 1.9628 | 1.9999 | 0.6102 |
| cluster_17 | 2 | TPSB2 | 1.6528 | 1.6565 | 0.8214 |
| cluster_2 | 2 | GZMK | 1.5727 | 1.6835 | 0.8185 |
| cluster_16 | 2 | SPARCL1 | 1.4974 | 1.7376 | 0.8333 |
| cluster_5 | 2 | IL7R | 1.073 | 1.9096 | 0.8976 |
| cluster_6 | 2 | LTB | 1.0218 | 1.7773 | 0.8852 |
| cluster_1 | 2 | CD3E | 0.9275 | 1.4547 | 0.9654 |
| cluster_15 | 3 | CFD | 4.3231 | 4.8109 | 1 |
| cluster_7 | 3 | CD74 | 4.0567 | 6.0044 | 1 |
Primary Metadata
Core de-identified metadata fields migrated from the ImmuneAging donor manifest.
Donor ID
BRCA-071-16-1A
Sample ID
BRCA-071-16-1A
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; Normal
Tissue / Cell Source
Normal
Modality
scRNA-seq (10X Genomics)
Cell Count
3,514
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: Normal; Protocol: 10X Genomics; Matrix: BRCA-071-16-1A.counts.matrix.tsv.gz (8.67 MB); UMAP: Scanpy-generated donor-level UMAP preview; cells=3514; raw genes=24655; 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
Breast Cancer
cancer type short
BRCA
library count
1
library sample ids
BRCA-071-16-1A
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
Normal
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-071-16-1A.counts.matrix.tsv.gz
matrix file size bytes
9091993
matrix file size mb
8.67
matrix download url
umap coordinates url
umap summary url
umap pipeline
Scanpy 1.9.8 normalize_total/log1p/HVG/PCA/neighbors/leiden/umap; cells=3514; raw_genes=24655; leiden_clusters=19; generated 2026-07-07
matrix integrity status
Gzip readable; UMAP generated