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ATLAS / POST-QC DATASET

Atlas / Post-QC Dataset Statistics Tissue › sys09tis02

Validated descriptive statistics for cells already present in this atlas release; this is not a report of pre-filtering QC decisions.

Species: SP239 Tissue: sys09tis02 Generated: 2026-08-08 07:48

📁 analysis_results_v2/SP239_tis/sys09tis02/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.

🔬

41,908

Total Cells

🧬

15,892

Total Genes

🔷

8

Cell Types

🫀

1

Tissues

📦

N/A

Samples

N/A: Not exported by the post-QC descriptive statistics pipeline.

📊

N/A

Clusters

N/A: Not exported by the post-QC descriptive statistics pipeline.

⚡

N/A

Mito %

N/A: Not exported by the post-QC descriptive statistics pipeline.

🧪

N/A

Ribo %

N/A: Not exported by the post-QC descriptive statistics pipeline.

🚫

N/A

Cells Filtered

N/A: Validated Raw Count Thresholds Not Available.

✅

N/A

Pass Rate

N/A: Validated Raw Count Thresholds Not Available.

📋 Overview 📊 QC Metrics 🗺️ UMAP 🧩 Composition 🧬 Markers 📈 Gene Stats 📁 Data 2

📋

Atlas / Post-QC OverviewDescriptive statistics for retained atlas cells; filtering metrics may be unavailable

🔬

Total Cells

41,908

Cells represented in this release

🧬

Total Genes

15,892

Genes represented in the source matrix

🔷

Cell Types

8

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.

🔷 Cell Type / Cluster Breakdown

Name	Cells	%	Med Genes	Med Counts	Med Mito%
Macrophages	1,078	2.5723012312685%	—	—	—
T cells	96	0.22907320797938%	—	—	—
Urothelial cells	26,688	63.682351818269%	—	—	—
Mesothelial cells	1,320	3.1497566097165%	—	—	—
Fibroblasts	8,438	20.134580509688%	—	—	—
Adipocytes	154	0.36747160446693%	—	—	—
Smooth muscle cells	3,427	8.177436289014%	—	—	—
Endothelial cells	707	1.6870287295982%	—	—	—

8 groups

📊

QC MetricsInteractive boxplots and scatter plots

📐 Distribution Summary

Metric	Min	Q1	Median	Mean	Q3	Max	Std

🎻 Genes/Cell BOXPLOT

🎻 Counts/Cell BOXPLOT

🎻 Mito % BOXPLOT

🎻 Ribo % BOXPLOT

🔬 Genes vs Counts SCATTER

🗺️

UMAP EmbeddingInteractive 2D projection colored by cell type / cluster

🗺️ UMAP by Group INTERACTIVE

🧩

Cell CompositionCell type proportions overall and per sample

🥧 Overall PIE

📊 Per-sample STACKED BAR

🧬

Marker GenesTop markers per cluster and expression heatmap

🔥 Expression Heatmap Z-SCORE

📈

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.

🏆 Top Expressed BAR

📁

Data FilesDownload QC data tables

📋 Available Files

File	Description	Action
composition.csv	Composition	📥 Download
gene_stats.csv	Gene Stats	📥 Download

📋 Preview: composition.csv

grouping	group	count	pct	category	color
celltype	Urothelial cells	26688	63.6824	Epithelial cells	#800080
celltype	Fibroblasts	8438	20.1346	Stromal cells	#008000
celltype	Smooth muscle cells	3427	8.1774	Muscle cells	#DEB887
celltype	Mesothelial cells	1320	3.1498	Epithelial cells	#7B68EE
celltype	Macrophages	1078	2.5723	Immune cells	#E9967A
celltype	Endothelial cells	707	1.687	Endothelial cells	#00FFFF
celltype	Adipocytes	154	0.3675	Stromal cells	#98FB98
celltype	T cells	96	0.2291	Immune cells	#DC143C

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