Lily Wang
@lilyminium.bsky.social
📤 135
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Science lead at Open Force Field. Core developer at MDAnalysis. Has never met an opossum.
reposted by
Lily Wang
MDAnalysis
3 months ago
🚨 Deadline coming up! 🎯 Don’t miss your chance to present at the
#mdaUGM2025
— abstract + travel bursary applications due July 15! Meet the community, share your work, learn from others, and get support to attend. 🔗 Info:
www.mdanalysis.org/pages/ugm2025/
#MDAnalysis
#OSS
#MolecularDynamics
#UGM
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Matthew Thompson now presenting a live joint demo at the
@omsf.io
workshop showing the amazing work you can do by combining OpenFF, OpenFE, OpenADMET, and OpenFold!
5 months ago
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reposted by
Lily Wang
Vincent Voelz
6 months ago
New paper from the Voelz Lab in
@pccp.rsc.org
! Goold et al. performed many parallel expanded ensemble free energy simulations on
@foldingathome.org
using GROMACS (
@gromacs.bsky.social
) with OpenFF 2.0 (
@openforcefield.org
) to make blind logP predictions in SAMPL9
doi.org/10.1039/D4CP...
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Expanded ensemble predictions of toluene–water partition coefficients in the SAMPL9 log P challenge
The logarithm of the partition coefficient (log P) between water and a nonpolar solvent is useful for characterizing a small molecule's hydrophobicity. For example, the water–octanol log P is often us...
https://doi.org/10.1039/D4CP03621B
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If you're working in ML and free-energy calculations for drug discovery,
#Pacifichem
2025 is still accepting abstracts for another two weeks!
add a skeleton here at some point
6 months ago
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reposted by
Lily Wang
7 months ago
A very common use case for our force fields is to simulate a protein-ligand system, using OpenFF parameters for the ligand and a protein-specific force field for the protein. Here's an example of how to set up and run a simulation like this:
docs.openforcefield.org/en/latest/ex...
#compchem
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Toolkit Showcase: Prepare and run a protein-ligand simulation — OpenFF Ecosystem documentation
https://docs.openforcefield.org/en/latest/examples/openforcefield/openff-toolkit/toolkit_showcase/toolkit_showcase.html
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reposted by
Lily Wang
OMSF
7 months ago
another open position! OpenADMET is looking for Research Software Engineers to help with some lifting. hit the jump to learn more!
omsf.io/community/jo...
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Job Board
All OMSF positions are currently remote, and we generally accept applications worldwide. Some positions may be restricted to the United States. All positions require a valid work permit - OMSF has lim...
https://omsf.io/community/jobboard/
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Using machine learning in binding free energy calculations for drug discovery? Share your work at our
#Pacifichem
symposium CLH019 "Machine learning for calculation of accurate protein-ligand binding free energies for drug discovery"! Abstracts close April 2.
pacifichem.org/scientific-p...
7 months ago
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