Yu-Shan Lin
Tufts Chemistry
Welcome to the YSL Group
We are a computational chemistry group working
towards a better understanding of the structures and functions of biomolecules.
Our group meetings in spring 2023 are Tuesday at 1 pm.
For more detail, please email YSL at
yu-shan.lin@tufts.edu
Latest news
- March 2023: YSL receives the Tufts University Rising Innovator Award.
- March 2023: YSL receives the Annual Women Leadership Award from the Rotary Club of Cambridge.
- October 2022: Our paper “A backbone-dependent rotamer library with high (φ, ψ) coverage using metadynamics simulations,” is published in Protein Sci.
- September 2022: Our paper “Binary combinatorial scanning reveals potent poly-alanine-substituted inhibitors of protein—protein interactions” with the Pentelute Lab in the Department of Chemistry at MIT is published in Comm. Chem.
- June 2022: Marc Descoteaux wins the ACS undergraduate award in physical chemistry! Congratulations, Marc!
- February 2022: Marc Descoteaux wins the Class of 1898 Prize! Congratulations, Marc!
- February 2022: Our paper “The endoplasmic reticulum proteostasis network profoundly shapes the protein sequence space accessible to HIV envelope” with the Shoulders Lab in the Department of Chemistry at MIT is published in PLOS Biol.
- January 2022: Dr. Arghya Ghosh joins the group. Welcome, Arghya!
- November 2021: Minh Ho and Nomindari Bayaraa join the group. Welcome, Nomi and Minh!
- November 2021: Our lab receives the Seed Grant from the Data Intensive Studies Center (DISC) at Tufts! This is a collaborative project with Prof. James Murphy in the Department of Mathematics at Tufts.
- October 2021: Jovan Damjanovic wins the ACS COMP Chemical Computing Group Excellence Award for Graduate Students! Congratulations, Jovan!
- October 2021: Our paper “Structure prediction of cyclic peptides by molecular dynamics + machine learning” is published in Chem. Sci.
Postdoc positions available
We are looking for two computational chemists experienced in machine learning and peptide molecular dynamics simulations to join us and work on cyclic peptide design or simulation analysis method development. Must have a strong background in machine learning methods and extensive experience in their applications; experience with enhanced sampling methods, GROMACS, and PLUMED a plus. If you are interested or know someone who might be interested, please send along (or have them send along) a CV and a couple of relevant publications to Prof. Lin at yu-shan.lin@tufts.edu
Info for graduate students interested in the YSL Group
Although some modeling or simulation experience is great, you don't need to have prior computational chemistry experience to join our group! We will train you from the beginning and get you up to speed. As long as you like peptides and proteins and are not afraid of math, physics, and computers, we will get you there! Feel free to reach out to Prof. Lin and any graduate students in the group. You can find their emails here.
Info for undergraduates interested in the YSL Group
For Tufts undergraduate students (first-years or sophomores) who are interested in the YSL Group, please apply on the chemistry department website here . For other research opportunities in the Chemistry Department: Check out the chemistry faculty members’ research websites. You can find them here. For other research opportunities in computational science at Tufts: Look up Tim Atherton in Physics, Lenore Cowen and Soha Hassoun in Computer Science, and Prashant Deshlahra in Chemical and Biological Engineering.