ATLAS / POST-QC DATASET
Atlas / Post-QC Dataset Statistics Tissue › sys08tis02
Validated descriptive statistics for cells already present in this atlas release; this is not a report of pre-filtering QC decisions.
๐ analysis_results_v2/SP121_tis/sys08tis02/releases/r20260808-v4/modules/stats
Scope: post_qc_descriptive / Source: validated immutable release
Limitations: Per-cell raw-count QC metrics were not exported in the v3 source release. / Statistics describe the selected post-QC cell universe; no pre/post filtering comparison is inferred.
๐ Overview
๐ QC Metrics
๐บ๏ธ UMAP
๐งฉ Composition
๐งฌ Markers
๐ Gene Stats
๐ Data 2
📋
Atlas / Post-QC OverviewDescriptive statistics for retained atlas cells; filtering metrics may be unavailable
🔬
Total Cells
16,490
Cells represented in this release
🧬
Total Genes
19,739
Genes represented in the source matrix
🔷
Cell Types
11
Annotated cell-type groups
🫀
Tissues
1
Annotated tissue groups
📦
Samples
N/A
Not exported by the post-QC descriptive statistics pipeline.
📊
Clusters
N/A
Not exported by the post-QC descriptive statistics pipeline.
📊
Median Genes/Cell
N/A
Not exported by the post-QC descriptive statistics pipeline.
📈
Median Counts/Cell
N/A
Not exported by the post-QC descriptive statistics pipeline.
⚡
Mito %
N/A
Not exported by the post-QC descriptive statistics pipeline.
🧪
Ribo %
N/A
Not exported by the post-QC descriptive statistics pipeline.
✅
Cells Passing
N/A
Validated Raw Count Thresholds Not Available.
🚫
Cells Filtered
N/A
Validated Raw Count Thresholds Not Available.
✅
Pass Rate
N/A
Validated Raw Count Thresholds Not Available.
QC filtering metrics: N/A
Validated Raw Count Thresholds Not Available. This release describes cells after upstream QC; it does not reconstruct filtering thresholds or removed-cell counts.
๐ท Cell Type / Cluster Breakdown
| Name | Cells | % | Med Genes | Med Counts | Med Mito% |
|---|---|---|---|---|---|
| Homeostatic chondrocytes | 4,518 | 27.398423286841% | — | — | — |
| Precursor fibrocartilage chondrocytes | 2,584 | 15.670103092784% | — | — | — |
| Effector chondrocytes | 2,284 | 13.850818677987% | — | — | — |
| Regulatory chondrocytes | 1,992 | 12.080048514251% | — | — | — |
| Pre-hypertrophic chondrocytes | 1,476 | 8.9508793208005% | — | — | — |
| Hypertrophic chondrocytes | 1,363 | 8.2656155245603% | — | — | — |
| Proliferative chondrocytes | 963 | 5.8399029714979% | — | — | — |
| Reparative chondrocytes | 914 | 5.5427531837477% | — | — | — |
| Fibrocartilage chondrocytes | 300 | 1.8192844147968% | — | — | — |
| Inflammatory chondrocytes | 70 | 0.42449969678593% | — | — | — |
| Pre-inflammatory chondrocytes | 26 | 0.15767131594906% | — | — | — |
11 groups
๐
QC MetricsInteractive boxplots and scatter plots
๐ Distribution Summary
| Metric | Min | Q1 | Median | Mean | Q3 | Max | Std |
|---|
๐ป Genes/Cell BOXPLOT
๐ป Counts/Cell BOXPLOT
๐ป Mito % BOXPLOT
๐ป Ribo % BOXPLOT
๐ฌ Genes vs Counts SCATTER
๐บ๏ธ
UMAP EmbeddingInteractive 2D projection colored by cell type / cluster
๐บ๏ธ UMAP by Group INTERACTIVE
๐งฉ
Cell CompositionCell type proportions overall and per sample
๐ฅง Overall PIE
๐ Per-sample STACKED BAR
๐งฌ
Marker GenesTop markers per cluster and expression heatmap
๐ฅ Expression Heatmap Z-SCORE
๐
Gene StatisticsTop expressed genes and detection rates
Limited gene-statistics scope: mapped longevity genes only
Descriptive source-X expression summaries for mapped longevity genes only; this is not a whole-transcriptome top-gene analysis. Rankings and percentages on this tab are restricted to the mapped longevity panel and must not be interpreted as genome-wide top-expression results.
๐ Top Expressed BAR
๐
Data FilesDownload QC data tables
๐ Available Files
| File | Description | Action |
|---|---|---|
| composition.csv | Composition | ๐ฅ Download |
| gene_stats.csv | Gene Stats | ๐ฅ Download |
๐ Preview: composition.csv
๐ฅ Full CSV| grouping | group | count | pct | category | color |
|---|---|---|---|---|---|
| celltype | Homeostatic chondrocytes | 4518 | 27.3984 | Stromal cells | #7FFF00 |
| celltype | Precursor fibrocartilage chondrocytes | 2584 | 15.6701 | Stromal cells | #F0E68C |
| celltype | Effector chondrocytes | 2284 | 13.8508 | Stromal cells | #3CB371 |
| celltype | Regulatory chondrocytes | 1992 | 12.08 | Stromal cells | #9ACD32 |
| celltype | Pre-hypertrophic chondrocytes | 1476 | 8.9509 | Stromal cells | #EEE8AA |
| celltype | Hypertrophic chondrocytes | 1363 | 8.2656 | Stromal cells | #7CFC00 |
| celltype | Proliferative chondrocytes | 963 | 5.8399 | Stromal cells | #F5F5DC |
| celltype | Reparative chondrocytes | 914 | 5.5428 | Stromal cells | #66CDAA |
First 8 rows