Author

P. Stadlbauer

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· 5 Biochemistry· 1

Signature Assays, Organisms & Methods

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Research Focus:protein folding & dynamics· 3 Approach:biophysical modeling· 2 Research Focus:benchmarking· 1 Approach:deep learning· 1 Approach:experimental assay· 1 Organism:human· 1 Approach:mechanistic / dynamical model· 1 Assay:multiome· 1

Frequent Co-Authors

J. Sponer· 6 shared M. Krepl· 3 shared M. Otyepka· 3 shared V. Mlynsky· 3 shared B. Islam· 2 shared J.-L. Mergny· 2 shared A. Cirigliano· 1 shared A. Giorgi· 1 shared

Activity by Year

2020-2024 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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6 shared papersBiophysics

J. Sponer

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

Mechanical stability and unfolding pathways of parallel tetrameric G-quadruplexes probed by pulling simulations

Z. Zhang, V. Mlynsky, M. Krepl, J. Sponer, P. Stadlbauer

This study uses pulling simulations to analyze the mechanical stability and unfolding pathways of tetrameric parallel G-quadruplexes, identifying key factors like vertical force components and unfolding transitions.

bioRxiv · Jan 26, 2024Biophysics

Simple Adjustment of Intra-nucleotide Base-phosphate Interaction in OL3 AMBER Force Field Improves RNA Simulations

V. Mlynsky, P. Kuhrova, P. Stadlbauer, M. Krepl, M. Otyepka, P. Banas, J. Sponer

The paper adjusts the AMBER OL3 force field to improve RNA simulations by fixing intra-nucleotide steric clashes in base-phosphate interactions.

bioRxiv · Sep 5, 2023 · PreprintBiophysics

Complexity of Guanine Quadruplex Unfolding Pathways Revealed by Atomistic Pulling Simulations

P. Stadlbauer, V. Mlynsky, M. Krepl, J. Sponer

The paper uses atomistic simulations to study how human telomeric GQs unfold under different mechanical forces and identifies factors influencing their unfolding mechanisms.

bioRxiv · Jan 27, 2023Biophysics

Insights into G-Quadruplex-Hemin Dynamics Using Atomistic Simulations: Implications for Reactivity and Folding

P. Stadlbauer, B. Islam, M. Otyepka, J. Chen, D. Monchaud, J. Zhou, J.-L. Mergny, J. Sponer

This study uses atomistic simulations to investigate G4-hemin interactions, revealing dynamic binding mechanisms and suggesting hemin's role in G4 folding.

bioRxiv · Nov 9, 2020Biophysics

Primitive RNA-catalysis with guanine-rich oligonucleotide sequences - the case of a (GGC)3 nonamer

G. Costanzo, A. Cirigliano, S. Pino, A. Giorgi, O. Sedo, Z. Zdrahal, P. Stadlbauer, J. Sponer, J. Sponer, E. Di Mauro

The paper investigates the catalytic potential of a (GGC)3 nonamer by showing thermal treatment produces a (GGC)3G species and supports transient geometries compatible with terminal recombination chemistry.

bioRxiv · May 4, 2020 · PreprintBiochemistry

Stability of Two-quartet G-quadruplexes and Their Dimers in Atomistic Simulations

B. Islam, P. Stadlbauer, M. Vorlickova, J.-L. Mergny, M. Otyepka, J. Sponer

This study uses molecular dynamics simulations to investigate the stability of two-quartet and four-quartet G-quadruplexes, finding that three quartets are needed for stable DNA GQs and RNA two-quartet GQs are weakly stable.

bioRxiv · Feb 25, 2020Biophysics