⚙ How is this computed? Methods: Data Formats
Analysis Complete

Analysis Results sys06

Published legacy analysis modules for the selected page.

Species: SP239
System: sys06
Generated: 2026-08-07 23:48
Modules: 5
📊 System Level
📡
6,964
Cell Interactions
🧬
158
TF-Target Pairs
📊
1,763
Significant DEGs
🎯
162
GO Terms
🛤️
144
KEGG Pathways
🔗
30
Co-exp Modules
⚗️
—
Metab. Pathways
🏥
12
Disease Links
💊
—
Drugs Matched
📡 Cell Communication ✓ 🧬 GRN Analysis ✓ 🔗 Co-expression ✓ 🔀 Trajectory Not computed 📊 DEG Analysis ✓ 🎯 GO / KEGG Not computed 🧪 ToppGene Not computed 🔠 Motif Not computed ⚗️ Metabolism Not computed 🏥 Disease ✓ 💊 Drug Analysis Not computed 📄 Full Report
📡

Cell-Cell CommunicationLigand-Receptor Interaction Analysis via CellChat / CellPhoneDB

🔢
Total Interactions
6,964
Significant ligand-receptor pairs
🛤️
Signaling Pathways
27
Unique pathways detected
📤
Top Sender
Macrophages
Most active signaling cell type
📥
Top Receiver
Adipocytes
Most active receiving cell type
Communication Heatmap

Communication Heatmap

Overall interaction strength between cell types. Rows = sender, columns = receiver.

🔍 Full Size
Communication Network

Communication Network

Network visualization of top 50 cell-cell interactions. Node size = connectivity degree.

🔍 Full Size
Signaling Pathway Activity

Signaling Pathway Activity

Top signaling pathways ranked by total communication score.

🔍 Full Size

📋 Top Ligand-Receptor Interactions

📥 All Interactions 📥 Pathway Summary
source target ligand receptor pathway ligand_expr receptor_expr score
Epididymal principal cells Epididymal principal cells TGFB1 TGFBR1 TGFb 0.003 0.1328 0.0004
Epididymal principal cells Smooth muscle cells TGFB1 TGFBR1 TGFb 0.003 0.2281 0.0007
Epididymal principal cells Basal cells TGFB1 TGFBR1 TGFb 0.003 0.1132 0.0003
Epididymal principal cells Spermatozoa TGFB1 TGFBR1 TGFb 0.003 0.1684 0.0005
Epididymal principal cells Fibroblasts TGFB1 TGFBR1 TGFb 0.003 0.1368 0.0004
Epididymal principal cells Macrophages TGFB1 TGFBR1 TGFb 0.003 0.1181 0.0004
Epididymal principal cells Endothelial cells TGFB1 TGFBR1 TGFb 0.003 0.1012 0.0003
Epididymal principal cells Mesothelial cells TGFB1 TGFBR1 TGFb 0.003 0.0797 0.0002
Epididymal principal cells Ciliated cells TGFB1 TGFBR1 TGFb 0.003 0.6208 0.0019
Epididymal principal cells Adipocytes TGFB1 TGFBR1 TGFb 0.003 0.3524 0.0011
Epididymal principal cells Spermatids TGFB1 TGFBR1 TGFb 0.003 0.2306 0.0007
Epididymal principal cells Leydig cells TGFB1 TGFBR1 TGFb 0.003 0.5416 0.0016
Showing top 12 rows · Download full table above
🧬

Gene Regulatory NetworkTranscription Factor Activity & TF-Target Inference (pySCENIC / DoRothEA)

🎛️
TFs Analyzed
90
Transcription factors profiled
🔗
TF-Target Pairs
158
Significant regulatory relationships

Top Regulatory TFs

RUNX1 31 targets
RUNX2 31 targets
GATA4 31 targets
GATA3 23 targets
STAT3 16 targets
JUN 14 targets
SOX9 5 targets
RB1 2 targets
CEBPB 2 targets
NFKB1 1 targets
TF Activity Heatmap

TF Activity Heatmap

Z-score normalized TF expression across cell populations.

🔍 Full Size 📥 TF Activity 📥 TF-Target Pairs
Gene Regulatory Network

Gene Regulatory Network

Red nodes: TFs. Blue: targets. Green edge: activation. Red edge: repression.

🔍 Full Size 📥 TF Activity 📥 TF-Target Pairs
🔗

Gene Co-expression NetworkWGCNA-style Module Analysis (hdWGCNA)

📦
Modules Identified
30
Co-expression gene modules
🧬
Genes Analyzed
2,000
Highly variable genes
Module Dendrogram

Module Dendrogram

Hierarchical clustering of co-expression modules based on topological overlap.

🔍 Full Size 📥 Gene Modules 📥 Eigengenes
Module-Cell Type Association

Module-Cell Type Association

Module eigengene activity across cell types.

🔍 Full Size 📥 Gene Modules 📥 Eigengenes
📊

Differential ExpressionCell Type Marker Genes (Wilcoxon / MAST)

📈
Significant DEGs
1,763
Genes passing adj. p < 0.05 & |log2FC| > 0.5
🏷️
Cell Types Compared
18
Cell populations analyzed
Volcano Plot

Volcano Plot

Log2 fold change vs significance. Red: up-regulated. Blue: down-regulated.

Marker Gene Heatmap

Marker Gene Heatmap

Z-score normalized expression of top marker genes per cell type.

📋 Top Marker Genes

📥 Top Markers 📥 All Significant DEGs 📥 Full DEG Results
names scores logfoldchanges pvals pvals_adj pct_nz_group pct_nz_reference cell_type
FABP4 9.0084 10.9448 0 0 0.9355 0.004 Adipocytes
CIDEC 7.4487 10.0119 0 0 0.7742 0.0022 Adipocytes
PLIN1 7.7498 9.3397 0 0 0.8065 0.0044 Adipocytes
C14orf180 7.1267 9.0871 0 0 0.7419 0.003 Adipocytes
GHR 9.6121 8.6044 0 0 1 0.124 Adipocytes
PPARG 9.5709 8.3744 0 0 1 0.0206 Adipocytes
TSHR 9.2547 7.9337 0 0 0.9677 0.0271 Adipocytes
GPD1 7.7123 7.8585 0 0 0.8065 0.0128 Adipocytes
KLB 7.088 7.8455 0 0 0.7419 0.0088 Adipocytes
GPAT3 9.5513 7.6535 0 0 1 0.0514 Adipocytes
KCNC2 17.8733 6.3507 0 0 0.2429 0.0072 Basal cells
HTR1E 47.6293 5.4582 0 0 0.6694 0.0686 Basal cells
Showing top 12 rows
🏥

Disease AssociationDisease Gene Enrichment (scDRS / DisGeNET / OMIM / ToppGene)

🔬
Diseases Tested
15
Disease categories analyzed
✅
Significant Associations
12
Cell type-disease links (adj. p < 0.05)

Top Associated Diseases

Systemic lupus erythematosus Autism spectrum disorder Breast cancer Asthma Asthma
Disease Association Heatmap

Disease Association Heatmap

-Log10(P-value) of disease gene enrichment per cell type.

Top Disease Associations

Top Disease Associations

Dot size: overlap genes. Color: significance.

📥 Disease Enrichment Data
📄

Full Analysis ReportComprehensive Summary & Downloads

📊

Interactive HTML Report

Complete analysis report with all figures, key findings, and data summaries in a standalone HTML page.

📄 Open Report
📦

Download All Results

Download all analysis results including CSV data, PNG figures, and JSON summaries as a compressed archive.

📥 Download ZIP
🔗

Share Results

Use this permanent link to share these analysis results:

analysis.php?SP_ID=SP239&sysID=sys06

📁 Available Result Files

Analysis File Type Action
Cell Communication cellchat_heatmap.png Figure (PNG) 🔍 View
Cell Communication cellchat_network.png Figure (PNG) 🔍 View
Cell Communication cellchat_pathway_dotplot.png Figure (PNG) 🔍 View
Cell Communication cellchat_interactions.csv Data (CSV) 📥 Download
Cell Communication cellchat_pathway_summary.csv Data (CSV) 📥 Download
GRN Analysis grn_tf_heatmap.png Figure (PNG) 🔍 View
GRN Analysis grn_network.png Figure (PNG) 🔍 View
GRN Analysis grn_tf_activity.csv Data (CSV) 📥 Download
GRN Analysis grn_tf_targets.csv Data (CSV) 📥 Download
Co-expression coexp_dendrogram.png Figure (PNG) 🔍 View
Co-expression coexp_module_heatmap.png Figure (PNG) 🔍 View
Co-expression coexp_modules.csv Data (CSV) 📥 Download
Co-expression coexp_eigengenes.csv Data (CSV) 📥 Download
DEG Analysis deg_volcano.png Figure (PNG) 🔍 View
DEG Analysis deg_marker_heatmap.png Figure (PNG) 🔍 View
DEG Analysis deg_top_markers.csv Data (CSV) 📥 Download
DEG Analysis deg_significant.csv Data (CSV) 📥 Download
DEG Analysis deg_all_results.csv Data (CSV) 📥 Download
Disease disease_heatmap.png Figure (PNG) 🔍 View
Disease disease_dotplot.png Figure (PNG) 🔍 View
Disease disease_enrichment.csv Data (CSV) 📥 Download
Report sys06_analysis_report.html Report (HTML) 📄 Open
Report sys06_summary.json Summary (JSON) 📥 Download