Author

S. E. Stone

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 2

Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Research Focus:chromatin & epigenetic regulation· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Assay:DNA methylation· 1 Research Focus:drug response / drug discovery· 1 Assay:multiome· 1 Research Focus:trajectory inference· 1

Frequent Co-Authors

D. Ray· 2 shared I. Andricioaei· 2 shared

Activity by Year

2021-2022 · peak 1/yr

Co-Author Collaboration Network

2 top collaborators · 1 mutual co-author link

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2 shared papersBiophysics

D. Ray

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2 papers

Recent·Most cited

Force Field Dependent DNA Breathing Dynamics: A Case Study of Hoogsteen Base Pairing in A6-DNA

S. E. Stone, D. Ray, I. Andricioaei

This paper investigates how different force field models affect the WC to HG base pair transition in DNA, finding that enthalpic stabilization and entropy balance determine conformational stability.

bioRxiv · May 4, 2022Biophysics

Markovian Weighted Ensemble Milestoning (M-WEM): Long-time Kinetics from Short Trajectories

D. Ray, S. E. Stone, I. Andricioaei

This paper introduces M-WEM, a method to calculate long-timescale biomolecular kinetics from short simulations, showing high accuracy and low computational cost.

bioRxiv · Jun 26, 2021Biophysics