ATLAS / POST-QC DATASET
Atlas / Post-QC Dataset Statistics System › sys06
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_sys/sys06/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
90,020
Cells represented in this release
🧬
Total Genes
19,739
Genes represented in the source matrix
🔷
Cell Types
25
Annotated cell-type groups
🫀
Tissues
5
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% |
|---|---|---|---|---|---|
| T cells | 6,057 | 6.7285047767163% | — | — | — |
| Macrophages | 1,688 | 1.8751388580315% | — | — | — |
| Monocytes | 1,379 | 1.5318818040435% | — | — | — |
| Dendritic cells | 721 | 0.80093312597201% | — | — | — |
| Plasma B cells | 281 | 0.31215285492113% | — | — | — |
| Mast cells | 37 | 0.041101977338369% | — | — | — |
| Natural killer T cells | 14 | 0.015552099533437% | — | — | — |
| B cells | 13 | 0.014441235281049% | — | — | — |
| Basophils | 12 | 0.01333037102866% | — | — | — |
| Natural killer cells | 6 | 0.0066651855143301% | — | — | — |
| Luminal epithelial cells | 22,063 | 24.508998000444% | — | — | — |
| Basal cells | 4,143 | 4.602310597645% | — | — | — |
| Glandular cells | 724 | 0.80426571872917% | — | — | — |
| Surface epithelial cells | 405 | 0.44990002221729% | — | — | — |
| Cycling epithelial cells | 69 | 0.076649633414797% | — | — | — |
| Theca cells | 13,661 | 15.175516551877% | — | — | — |
| Fibroblasts | 6,397 | 7.1061986225283% | — | — | — |
| Other stromal cells | 5,686 | 6.3163741390802% | — | — | — |
| Pericytes | 1,938 | 2.1528549211286% | — | — | — |
| Peritubular myoid cells | 93 | 0.10331037547212% | — | — | — |
| Smooth muscle cells | 10,817 | 12.016218618085% | — | — | — |
| Spermatids | 2,695 | 2.9937791601866% | — | — | — |
| Spermatocytes | 2,302 | 2.557209508998% | — | — | — |
| Spermatogonia | 659 | 0.73205954232393% | — | — | — |
| Endothelial cells | 8,160 | 9.064652299489% | — | — | — |
25 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 | Luminal epithelial cells | 22063 | 24.509 | Epithelial cells | #4682B4 |
| celltype | Theca cells | 13661 | 15.1755 | Stromal cells | #2F4F4F |
| celltype | Smooth muscle cells | 10817 | 12.0162 | Muscle cells | #DEB887 |
| celltype | Endothelial cells | 8160 | 9.0647 | Endothelial cells | #00FFFF |
| celltype | Fibroblasts | 6397 | 7.1062 | Stromal cells | #008000 |
| celltype | T cells | 6057 | 6.7285 | Immune cells | #DC143C |
| celltype | Other stromal cells | 5686 | 6.3164 | Stromal cells | #008B8B |
| celltype | Basal cells | 4143 | 4.6023 | Epithelial cells | #006400 |
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