Submission information
Submission Number: 108
Submission ID: 200
Submission UUID: 9d5f4163-d512-40b0-9eda-8c7fd954b914
Submission URI: /form/project
Created: Mon, 09/06/2021 - 09:17
Completed: Mon, 09/06/2021 - 09:27
Changed: Wed, 07/06/2022 - 15:09
Remote IP address: 148.74.85.131
Submitted by: Avery Leider
Language: English
Is draft: No
Webform: Project
| Project Title | Investigating Protein Folding using Knapsack Minimization Algorithms on High Performance Computers and Quantum Computers |
|---|---|
| Program | CAREERS |
| Project Image |
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| Tags | ai (271), benchmarking (400), bioinformatics (277), biology (515), computational-chemistry (81), deep-learning (303), hpc-arch-and-perf (467), jupyterhub (214), machine-learning (272), optimization (509), proposal-development (341), python (69), quantum-mechanics (281), scikit-learn (273), singularity (23) |
| Status | Halted |
| Project Leader | Avery Leider |
| al43110n@pace.edu | |
| Mobile Phone | 917-991-5235 |
| Work Phone | 917-991-5235 |
| Mentor(s) | Avery Leider |
| Student-facilitator(s) | Gio Abou Jaoude, MLDL Vermont, Siddh Agarwal |
| Mentee(s) | |
| Project Description | Investigating Protein Folding using Knapsack Minimization Algorithms on High Performance Computers and Quantum Computers. Protein folding and unfolding in nature appears to use the forward thinking greedy algorithm of Knapsack Minimization. Understanding this and then enhancing it with sorting can help us find new medicines swiftly, instead of the incremental approach that is currently the method for the pharmaceutical sciences, such as bioinformatics and biotechnology. We seek to understand how to use our current bioinformatics tools on the AiMOS high performance computer (HPC) and the Q-Experience quantum computers of IBM available to researchers. |
| Project Deliverables | Write code in Python and post it in Google Colab to share and collaborate. Use greedy algorithm template for code. Check on |
| Project Deliverables | |
| Student Research Computing Facilitator Profile | Seeking biological informatics and quantum computing curious. |
| Mentee Research Computing Profile | |
| Student Facilitator Programming Skill Level | Can work with any level |
| Mentee Programming Skill Level | |
| Project Institution | Pace University |
| Project Address | 861 Bedford Rd Pleasantville, New York. 10570 |
| Anchor Institution | CR-Rensselaer Polytechnic Institute |
| Preferred Start Date | |
| Start as soon as possible. | Yes |
| Project Urgency | Already behind3Start date is flexible |
| Expected Project Duration (in months) | 6 months |
| Launch Presentation | |
| Launch Presentation Date | 09/08/2021 |
| Wrap Presentation | |
| Wrap Presentation Date | 02/09/2022 |
| Project Milestones | |
| Github Contributions | |
| Planned Portal Contributions (if any) | |
| Planned Publications (if any) | |
| What will the student learn? | |
| What will the mentee learn? | |
| What will the Cyberteam program learn from this project? | |
| HPC resources needed to complete this project? | |
| Notes | |
| What is the impact on the development of the principal discipline(s) of the project? | |
| What is the impact on other disciplines? | |
| Is there an impact physical resources that form infrastructure? | |
| Is there an impact on the development of human resources for research computing? | |
| Is there an impact on institutional resources that form infrastructure? | |
| Is there an impact on information resources that form infrastructure? | |
| Is there an impact on technology transfer? | |
| Is there an impact on society beyond science and technology? | |
| Lessons Learned | |
| Overall results |