CRISPR/Cas13 is a programmable RNA-targeting system with a significant therapeutic potential. However, there is a lack of method for designing highly specific CRISPR/Cas13 systems. We have generated a large data set with high-throughput genomic assays and a previous DSI scholar has developed a transformer-based model that is capable of predicting targeting specificity from RNA sequences. We are looking for a motivated student with a strong deep learning background and a basic understanding of molecular biology to improve the model and publish the result.

This project is eligible for a matching fund stipend from the Data Science Institute. This is not a guarantee of payment, and the total amount is subject to available funding.

Faculty Advisor

  • Professor: Xuebing Wu
  • Center/Lab: Medicine; Systems Biology
  • Location: Xuebing Wu Lab, P&S 10-401
  • Decoding and targeting RNA

Project Timeline

  • Earliest starting date: 10/16/2022
  • End date: 12/31/2022
  • Number of hours per week of research expected during Fall 2022: ~10

Candidate requirements

  • Skill sets: fluency in Python, experience in deep learning, basic understanding of DNA/RNA and molecular biology
  • Student eligibility: freshman, sophomore, junior, senior, master’s
  • International students on F1 or J1 visa: eligible
  • Academic Credit Possible: No
  • Additional comments: N/A