https://github.com/torinriley/crispr-efficiency-predictor
A machine learning model for predicting CRISPR-Cas9 editing efficiency using DNA sequence and epigenetic features.
https://github.com/torinriley/crispr-efficiency-predictor
Last synced: 2 months ago
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A machine learning model for predicting CRISPR-Cas9 editing efficiency using DNA sequence and epigenetic features.
- Host: GitHub
- URL: https://github.com/torinriley/crispr-efficiency-predictor
- Owner: torinriley
- Created: 2025-01-07T02:34:47.000Z (4 months ago)
- Default Branch: main
- Last Pushed: 2025-01-07T17:07:14.000Z (4 months ago)
- Last Synced: 2025-03-08T04:47:56.661Z (2 months ago)
- Language: Python
- Homepage:
- Size: 303 KB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 1
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Metadata Files:
- Readme: README.md
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README
# CRISPR-Efficiency-Predictor
A machine learning model for predicting CRISPR-Cas9 editing efficiency using DNA sequence and epigenetic features.
## Overview
This repository provides an implementation of a deep learning-based model for predicting the efficiency of CRISPR-Cas9 gene editing. By incorporating both DNA sequence information and epigenetic features (e.g., chromatin accessibility and histone modifications), the model achieves high accuracy and minimal prediction error.
## Features
- Utilizes a convolutional neural network (CNN) for DNA sequence processing.
- Integrates epigenetic features (CTCF, DNase, H3K4me3, RRBS) to enhance prediction accuracy.
- Predicts CRISPR efficiency scores for target DNA sequences.
## Dataset
This project utilizes data from the **DeepCRISPR** dataset. For more information, visit the dataset's original repository and citation below:
- **Dataset**: [DeepCRISPR GitHub Repository](https://github.com/bm2-lab/DeepCRISPR)
- **Citation**: Guohui Chuai, Qi Liu et al. *DeepCRISPR: optimized CRISPR guide RNA design by deep learning*. 2018 (Manuscript submitted).
## Hugging Face Model Repository
You can also find this model on Hugging Face for easy access and deployment:
- [CRISPR Efficiency Model on Hugging Face](https://huggingface.co/torinriley/CRISPR-Efficiency)