Pengning Xu

College of Sciences

Works (3)

Updated: July 4th, 2023 21:20

2022 journal article

A blind benchmark of analysis tools to infer kinetic rate constants from single-molecule FRET trajectories


MeSH headings : Benchmarking; Fluorescence Resonance Energy Transfer / methods; Kinetics; Models, Theoretical
TL;DR: A blind benchmark study assessing eleven analysis tools used to infer kinetic rate constants from smFRET trajectories, testing on simulated and experimental data and identifying key targets for future developments to advance the understanding of biomolecular dynamics. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: October 3, 2022

2021 review

Molecular conformations and dynamics of nucleotide repeats associated with neurodegenerative diseases: double helices and CAG hairpin loops


By: F. Pan*, Y. Zhang*, P. Xu n, V. Man n, C. Roland n, K. Weninger n, C. Sagui n

author keywords: Trinucleotide hexanucleotide repeats; CAG; GAC; CTG; CUG; CCG; GGC; GGGGCC; GGCCCC; Hairpin loops; smFRET; Molecular dynamics
Sources: Web Of Science, ORCID
Added: August 30, 2021

2021 journal article

Structure, dynamics, and regulation of TRF1-TIN2-mediated trans- and cis-interactions on telomeric DNA


By: H. Pan n, P. Kaur n, R. Barnes*, A. Detwiler*, S. Sanford*, M. Liu n, P. Xu n, C. Mahn n ...

MeSH headings : Cell Adhesion Molecules / metabolism; Cell Adhesion Molecules / physiology; DNA / metabolism; DNA-Binding Proteins / metabolism; Humans; Microscopy, Atomic Force / methods; Models, Molecular; Multiprotein Complexes / metabolism; Protein Binding; Protein Isoforms / metabolism; Shelterin Complex / metabolism; Shelterin Complex / physiology; Telomere / metabolism; Telomere-Binding Proteins / metabolism; Telomere-Binding Proteins / physiology; Telomeric Repeat Binding Protein 1 / metabolism; Telomeric Repeat Binding Protein 1 / physiology; Telomeric Repeat Binding Protein 2 / metabolism; Telomeric Repeat Binding Protein 2 / physiology
TL;DR: Analysis of DNA molecular structures promoted by TRF1-TIN2 interaction supports a molecular model in which protein assemblies at telomeres are heterogeneous with distinct subcomplexes and full shelterin complexes playing distinct roles in telomere protection and elongation. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: October 26, 2021

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