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General Information
Full Name | Zijian (William) Niu |
zniu [at] mit.edu |
Education
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2024 - Present Ph.D. in Computational and Systems Biology
Massachusetts Institute of Technology -
2020 - 2024 B.A., summa cum laude, in Biochemistry, Biophysics, and Physics
University of Pennsylvania, Roy and Diana Vagelos Scholars Program in the Molecular Life Sciences - GPA: 4.00/4.00
- Relevant Coursework: Molecular Biology and Genetics, Biochemistry, Biophysics, Organic Chemistry, Statistical Mechanics, Analytical Mechanics, Quantum Mechanics, Electrodynamics, Theoretical and Computational Neuroscience, Physical Networks, Machine Learning, Large-Scale Optimization, Probability Theory, Differential Geometry, Differential Equations, Complex Analysis, Real Analysis
Research Experience
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2021 - 2024 Undergraduate Researcher at the Arjun Raj Lab
Department of Bioengineering and Genetics, University of Pennsylvania - Created Piscis, an automatic deep learning algorithm for spot detection in RNA fluorescence in situ hybridization (FISH) images. Significantly outperformed existing computational methods.
- Mentored a high school researcher on deep learning and writing Python functions for data preprocessing.
- Contributed to NimbusImage, a web platform for biological image analysis that empowers researchers to visualize their data interactively while leveraging state-of-the-art machine learning algorithms.
- Deployed NimbusImage via Docker on Linux servers in both the Raj Lab and Shaffer Lab.
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2021 Undergraduate Researcher at the Sydney Shaffer Lab
Department of Pathology and Bioengineering, University of Pennsylvania - Investigated the molecular origins of Barrett's esophagus by analyzing single-cell RNA sequencing data of patient samples in R. Discovered a rare subpopulation of ciliated cells expressing fetal intestinal genes.
- Created Cellori, a fast and robust algorithm for nuclei segmentation in fluorescence microscopy images.
- Created DeepTile, a Python library that splits large images into smaller tiles, processes each tile, and stitches together the outputs, allowing functions to scale up to arbitrary input image sizes.
Honors and Awards
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2024 - Hertz Foundation Fellowship
- PD Soros Fellowship for New Americans
- DOE Computational Science Graduate Fellowship (CSGF)
- NSF Graduate Research Fellowship (GRFP) — declined
- Penn Arts and Sciences Dean's Scholar
- Penn Physics and Astronomy William E. Stephens Memorial Prize
- Phi Beta Kappa
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2023 - Barry M. Goldwater Scholarship
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2022 - Roy and Diana Vagelos Science Challenge Award
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2020 - Roy and Diana Vagelos Scholar
Teaching Experience
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2023 Teaching Assistant
ESE 5300: Elements of Probability Theory - Graduate-level electrical engineering (ESE) course at Penn on measure-theoretic probability theory.
- Hosted two 1.5-hour office hours each week to guide students through assignments and recitations to review and practice important mathematical concepts.
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2021 - 2023 Workshop Leader
Organic Chemistry Workshops - Program coordinated by Penn's Weingarten Learning Resources Center for organic chemistry students.
- Developed lesson plans and facilitated weekly two-hour workshop sessions to help students reinforce and apply concepts learned from lectures to solve challenging organic chemistry problems.
- Over 200 students attended my workshops.
Leadership and Community Service
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2022 - 2024 Co-founder, Co-president
Project Lucid - Initiative with the mission of spreading awareness and building confidence among Penn undergraduates for effective science communication.
- Hosted the Lucid Science Challenge, a research proposal competition based on the National Science Foundation's grant review process, providing a platform for undergraduates to practice adapting their science communication to a new audience.
- Invited seven Penn professors and an industry scientist and executive from Ginkgo Bioworks to serve on our competition judging panels. Raised over \$1,000 from sponsorships to fund prizes and merch.
- Hosted a science communication workshop series, covering topics such as audience identification and scientific storytelling.
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2020 - 2024 Operations Committee, Event Supervisor, Urban Initiative Fellow
Science Olympiad at the University of Pennsylvania (SOUP) - One of the most competitive Science Olympiad Invitational Tournaments with over 750 high schoolers participating annually.
- Organized virtual social and Penn student panel events for the 2021 and 2022 tournaments.
- Wrote and proctored exams for the Chemistry Lab (2021) and Codebusters (2022, 2023, 2024) events.
- Mentored high schoolers from underserved Philadelphia high schools on their Science Olympiad events.
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2022 - 2023 Vice President of Community Outreach
Penn Undergraduate Chemistry Society (PUCS) - Organization to promote the appreciation of chemistry within Penn and the Philadelphia community.
- Hosted a mixer event combining liquid nitrogen ice cream-making with a student research poster session.
- Launched a community outreach initiative to share the fun of chemistry and its everyday relevance with students from underserved schools. Conducted a successful pilot at Parkway West High School.
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2015 - 2020 Co-Founder, Director, Head Problem Writer
Winchester Math Competition (WinMaC) - Math competition for elementary students in the fourth and fifth grades.
- Proposed over 300 problems. Managed weekly team meetings. Helped with venue coordination. Fostered relationships with elementary schools. Hosted over 250 participants and 50 teams from 2016 to 2020.
Professional Development
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2023 Summer School Student
Physics of Life Summer School at Princeton University - Summer school offered by Princeton University's Center for the Physics of Biological Function, targeting advanced undergraduates interested in biological physics.
- One of 24 students chosen by application to attend two weeks of lectures, problem sessions, and hands-on experiments to build an understanding of how physical principles give rise to biological phenomena.