Riniker lab @ ETHZ

58 posts

Riniker lab @ ETHZ

@rinikerlab

Katılım Mart 2021

29 Takip Edilen919 Takipçiler

Riniker lab @ ETHZ@rinikerlab·19 Haz

We're happy to be the #ChemSciPicks of week from @ChemicalScience

Chemical Science@ChemicalScience

This week's #ChemSciPicks comes from Sereina Riniker (@rinikerlab) at ETH Zürich (@ETH_DCHAB) and looks at a general graph neural network based implicit solvation model for organic molecules in water. Read it here: doi.org/10.1039/D4SC02…

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Riniker lab @ ETHZ@rinikerlab·21 Ağu

Our latest preprint introduces and validates a new hybrid classical/ML force field for working with condensed phase systems. It's now up on arXiv: arxiv.org/abs/2308.08984

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Riniker lab @ ETHZ@rinikerlab·19 Tem

We are really happy to announce that @linker_phi's paper on membrane permeability of cyclic peptides has won the @RoySocChem's Outstanding Student Paper award in computational and theoretical chemistry for 2022!

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Riniker lab @ ETHZ@rinikerlab·11 Tem

We're really happy that our most recent publication in @JChemPhys, which introduces a new energy-based clustering algorithm, has been featured by the editors will be the cover image for the next issue. pubs.aip.org/aip/jcp/articl…

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Riniker lab @ ETHZ@rinikerlab·11 Tem

The next paper from our collaboration with the @LabZenobi is now out. Here we applied #MolecularDynamics to understand the trends observed in #FRET experiments. pubs.acs.org/doi/10.1021/ac…

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Riniker lab @ ETHZ@rinikerlab·26 May

Our most recent preprint shares an efficient approach for assigning partial charges to atoms in molecules. The method uses a hierarchy created from attention values from a GNN trained on QM data. arxiv.org/abs/2305.15981 It's all #opensource and #opendata, of course.

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Riniker lab @ ETHZ@rinikerlab·23 May

Our second paper that came out today describes @AnnaKamenik's collaboration with the Zenobi group combining experimental and computational techniques to help understand the structures of peptides in the gas phase. nature.com/articles/s4146…

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Riniker lab @ ETHZ@rinikerlab·22 May

In our most recent publication we use a graph neural network to develop a model for implicit solvation in molecular dynamics simulations of peptides. The code is open source and the model is freely downloadable. pubs.aip.org/aip/jcp/articl…

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Riniker lab @ ETHZ@rinikerlab·17 Mar

Interested in water in ligand binding sites? Our newest paper applies RE-EDS to study the thermodynamics of water networks in protein cavities. pubs.acs.org/doi/10.1021/ac…

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Riniker lab @ ETHZ@rinikerlab·8 Mar

Our new #preprint introduces SIMPD: an algorithm for creating training/test sets for molecular #machinelearning based on an analysis of a large number of real-world medchem projects. #opensource code and data are in github. chemrxiv.org/engage/chemrxi…

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Riniker lab @ ETHZ@rinikerlab·3 Mar

Escape from the curse of dimensionality: Our newest preprint introduces an energy-based clustering algorithm that allows you to avoid common problems with estimated densities. The code is, of course, #opensource arxiv.org/abs/2303.01104 github.com/rinikerlab/Ene…

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Riniker lab @ ETHZ@rinikerlab·22 Şub

We've got a new #preprint up describing an approach for simulating an implicit solvent for MD using transferable graph neural networks. All the code is, of course, #opensource. arxiv.org/abs/2302.09321

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Riniker lab @ ETHZ@rinikerlab·13 Şub

Do you want a small sneak peak? Here is an unbiased MD simulation of a cyclic peptide crossing the membrane

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Riniker lab @ ETHZ@rinikerlab·13 Şub

Looking for some insights into the permeation process of your beyond rule-of-five (bRo5) compound? Check out these four permeability steps of a cyclic peptide crossing a lipid membrane: pubs.acs.org/doi/10.1021/ac… #OpenAccess #Compchem #bRo5 #permeability

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Riniker lab @ ETHZ@rinikerlab·7 Şub

We are very happy to be starting this multi-year project with our collaborators at @NovartisScience.

D-CHAB@ETH_DCHAB

Congratulations to Sereina Riniker @rinikerlab who is among the recipients of the 2022 NIBR Global Scholars Program @NovartisScience !Each Scholar will receive up to 1 mil USD funding over 3 years along with drug-hunting expertise from #NIBR collaborators. novartis.com/research-devel…

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Riniker lab @ ETHZ@rinikerlab·23 Oca

Our newest paper introduces enu, an #opensource tool for enumerating all isomers (including stereoisomers!) for a given molecular formula. jcheminf.biomedcentral.com/articles/10.11… You can find the source code for enu on @github: github.com/csms-ethz/Comb…

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Riniker lab @ ETHZ@rinikerlab·16 Oca

Great teamwork and discussions with academic and industry colleagues lead to this perspective looking at machine learning for small-molecule drug discovery. sciencedirect.com/science/articl…

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Riniker lab @ ETHZ@rinikerlab·16 Oca

"Regularized by Physics": our new paper introduces a method for using graph neural networks to parameterize force-field potentials. pubs.acs.org/doi/10.1021/ac…

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Riniker lab @ ETHZ@rinikerlab·23 Ara

Preprint alert. Interested in water molecules that affect ligand binding and affinity to protein pockets? We analyzed their energetic contributions as well as arising solvation correlation effects of water networks. #ComputationalChemistry #DrugDesign chemrxiv.org/engage/chemrxi…

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Riniker lab @ ETHZ@rinikerlab·23 Ara

Hot off the press. We improved our IR spectra alignment algorithm that helps you determining the relative stereochemistry of organic molecules. It compares theoretical and experimental IR spectra of all isomers and finds the best match. Check it out here: pubs.rsc.org/en/content/art…

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Keşfet

@ChemicalScience @linker_phi @RoySocChem @JChemPhys @LabZenobi @AnnaKamenik @NovartisScience @github