Fibroblast Atlas Browser in Osteoarthritis

🧬 Fibroblast Markers

Identification: COL1A1, PDGFRA
Subtypes: CLIC5 (lining), THY1 (sub-lining), CD34 (protective), CYBB (inflammatory)

🔬 Key Findings

CD34+ Loss: 54.49% reduced in obese OA
Pathways: Hypoxia (HIF1α), Adipogenesis (PPARG), ECM degradation (MMP3/13)

📊 Quick Guide

Basic: Select gene → Update Visualization
GSEA: Choose subtype → Load DEGs/Pathways
Compare: Obese vs Non-obese, OA vs Healthy

📋 Analysis Modules

📊 Basic Analysis

🧬 GSEA

🔄 Cell Trajectory

🔗 Cell Interaction

🎛️ Analysis Controls

Gene Name:

Grouped By:

Quick genes to try: CD34, VIM, COL1A1, COL3A1, FN1, ACTA2, PDGFRA, THY1, DCN, LUM, POSTN

📊 UMAP Visualization

🔄 Loading UMAP visualization...

Cell clusters and subtypes

📊 Gene Expression

🔄 Loading gene expression...

Expression levels on UMAP

🎯 Marker Expression

🔄 Loading marker expression...

Expression levels across cell populations

🧬 Differentially Expressed Genes (DEGs)

Cell Subtype:

Comparison:

Top N genes:

Filter by gene:

📊 Select parameters and click "Load DEGs"

View top differentially expressed genes

🛤️ Pathway Enrichment Table

Cell Subtype:

Comparison:

Top N pathways:

Filter by pathway:

📊 Pathway enrichment results will appear here

Load pathway data to view detailed results

📈 Pathway Analysis

🔄 Loading pathway analysis...

Select parameters and click "Load Pathways"

🎛️ Trajectory Controls

Dataset:

View Type:

Gene for Pseudotime:

🔄 Trajectory Plot

📊 Select parameters and click "Load Trajectory"

Interactive trajectory visualization

📊 Density Distribution

📈 Pseudotime density distribution

Cell type distributions across pseudotime

📈 State Proportions

📊 Cell type proportions across states

How cell types change along trajectory

⏰ Pseudotime Gene Expression

📊 Pseudotime gene expression analysis

Gene expression changes over pseudotime

🎛️ Interaction Controls

Analysis Type:

Top N interactions:

📊 Interaction Table

📊 Interaction data table will appear here

Load interaction data to view detailed results

🔗 Cell-Cell Interaction Analysis

📊 Select analysis type and click "Load Interaction"

Interactive cell communication analysis

FAB-OAOB