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Gsoc intro - Stuart (#35)
* Stuart intro * Update _posts/2025-06-01-gsoc-students.md Co-authored-by: Jenna M Swarthout Goddard <[email protected]> * Update 2025-06-01-gsoc-students.md --------- Co-authored-by: Jenna M Swarthout Goddard <[email protected]>
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_posts/2025-06-01-gsoc-students.md

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## Yu-Yuan (Stuart) Yang: [MDAnalysis x ProLIF Project 5: H-Bond Interactions from Implicit Hydrogens](https://summerofcode.withgoogle.com/programs/2025/projects/5Otkx8vp)
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<img
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src="Picture Here"
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src="https://avatars.githubusercontent.com/yuyuan871111"
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title="Yu-Yuan (Stuart) Yang" alt="Yu-Yuan (Stuart) Yang"
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style="float: left; width: 110px; height: 110px; border-radius: 20px; border: 15px solid white" />
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Write a short description of your project here!
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Write something about yourself here! (affiliation, background, interests - work and/or personal, etc.)
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[ProLIF](https://github.com/chemosim-lab/ProLIF), a MDAnalysis/RDKit-based tool for identifying protein-molecule interactions in molecular dynamics trajectories, lacks a straightforward method for evaluating hydrogen bonds when only heavy atoms are present. This project introduces an "implicit hydrogen bond (H-bond) interaction method" directly using heavy atom positions to detect H-bonds. This new feature for ProLIF will help many users (especially, beginner-level programming users) compare their experimental and computational structures without explicit hydrogens.
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Add where we can find you here! (github, linkedin, twitter, others, etc.)
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Yu-Yuan (Stuart) graduated from National Taiwan University (Taipei, Taiwan), holding a Bachelor of Science in Agricultural Chemistry, a Bachelor of Engineer in Chemical Engineering, and a Master of Science in Biomedical Electronics and Bioinformatics. He worked on both wet-lab ([WPI fibril microcapsules](https://doi.org/10.1016/j.jtice.2024.105344), [SEA-PHAGE](https://www.linkedin.com/in/yuyuan871111/overlay/1635506597143/single-media-viewer?type=DOCUMENT&profileId=ACoAACiNG10BL5O9KRp8TUNZI_sskb-wj5N80BM&lipi=urn%3Ali%3Apage%3Ad_flagship3_profile_view_base%3BC9cMZG0TSRKfr%2F%2BybMQWPw%3D%3D)) and dry-lab ([FastEval Parkinsonism](https://doi.org/10.1038/s41746-024-01022-x), [Quantum computing for drug discovery](https://doi.org/10.1109/MNANO.2023.3249499), [MD simulations of SARS-CoV-2 omicron variants](https://doi.org/10.1093/bfgp/elac053), [Automated WGS(WES) reporting system](https://github.com/yuyuan871111/NHRI_group4)) projects. [Stuart](https://www.qmul.ac.uk/sbbs/staff/yuyuanyang.html) currently studies for a PhD in [UKRI-AIDD doctoral training programme](https://www.qmul.ac.uk/deri/ukri-aidd-doctoral-training-programme/) in [Richard W. Pickersgill](https://www.qmul.ac.uk/sbbs/staff/richardpickersgill.html)'s and [Arianna Fornili's group](https://afornililab.wordpress.com/) at Queen Mary University of London (London, UK) to explore protein conformations with a computer-vision-based deep learning model. He is pursuing a career as a computational research scientist in drug discovery. During the free time, Stuart enjoys playing volleyball and badminton and sometimes visiting new places and cities with his family and friends.
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You can find Stuart on GitHub as @yuyuan871111 and on [LinkedIn](https://www.linkedin.com/in/yuyuan871111/). To keep up to date with his latest projects, check out his [blog](https://yuyuan871111.github.io/blogs/gsoc/).
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@BradyAJohnston @cbouy @fiona-naughton @jeremyleung521 @ljwoods2 @ltchong @orbeckst @talagayev @yuxuanzhuang @IAlibay @jennaswa (mentors and org admins)
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