README.md

metadata

title: FunGO
emoji: 🧬
colorFrom: blue
colorTo: green
sdk: gradio
sdk_version: 4.44.0
app_file: app.py
pinned: false
license: mit
short_description: Protein Function Prediction using ESM2 + XGBoost

FunGO — Protein Function Prediction

Beyond Prediction — Understanding Function.

FunGO predicts Gene Ontology (GO) terms for protein sequences using:

• ESM2-t36-3B — protein language model embeddings (layers 30–35)
• XGBoost classifiers — 4,133 GO-term specific models
• Evidence-tiered filtering — Strong / Moderate / Indicative

Evidence Tiers

Tier	IA Weight	Confidence	Description
Strong Evidence	> 5.0	≥ 0.30	Highly specific GO term
Moderate Evidence	> 2.0	≥ 0.50	Moderately specific term
Indicative	> 1.0	≥ 0.65	Lower specificity, high confidence

Ontologies Covered

• MFO — Molecular Function
• BPO — Biological Process
• CCO — Cellular Component

Development Team

• Dr. Beenish Maqsood — Principal Investigator, School of Biochemistry and Biotechnology, University of the Punjab
• Dr. Naeem Mahmood — Co-Supervisor, School of Biochemistry and Biotechnology, University of the Punjab
• Muteeba Azhar — Lead Developer, MS Researcher, University of the Punjab