The molecular structure of long non-coding RNAs: emerging patterns and functional implications
Long non-coding RNAs (lncRNAs) are recently-discovered transcripts that regulate vital
cellular processes and are crucially connected to diseases. Despite their unprecedented …
cellular processes and are crucially connected to diseases. Despite their unprecedented …
Protein dynamics by the combination of high-speed AFM and computational modeling
H Flechsig, T Ando - Current Opinion in Structural Biology, 2023 - Elsevier
High-speed atomic force microscopy (HS-AFM) allows direct observation of biological
molecules in dynamic action. However, HS-AFM has no atomic resolution. This article …
molecules in dynamic action. However, HS-AFM has no atomic resolution. This article …
Simulation atomic force microscopy for atomic reconstruction of biomolecular structures from resolution-limited experimental images
Atomic force microscopy (AFM) can visualize the dynamics of single biomolecules under
near-physiological conditions. However, the scanning tip probes only the molecular surface …
near-physiological conditions. However, the scanning tip probes only the molecular surface …
End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images
Observing the structural dynamics of biomolecules is vital to deepening our understanding
of biomolecular functions. High-speed (HS) atomic force microscopy (AFM) is a powerful …
of biomolecular functions. High-speed (HS) atomic force microscopy (AFM) is a powerful …
Biological and methodological complexities of beta‐amyloid peptide: Implications for Alzheimer's disease research
MM Matuszyk, CJ Garwood, L Ferraiuolo… - Journal of …, 2022 - Wiley Online Library
Although controversial, the amyloid cascade hypothesis remains central to the Alzheimer's
disease (AD) field and posits amyloid‐beta (Aβ) as the central factor initiating disease onset …
disease (AD) field and posits amyloid‐beta (Aβ) as the central factor initiating disease onset …
[HTML][HTML] Integrative/hybrid modeling approaches for studying biomolecules
The structural and dynamical characterization of biomolecules holds central importance in
the endeavor to understand the molecular mechanisms regulating living systems. However …
the endeavor to understand the molecular mechanisms regulating living systems. However …
Rigid-body fitting to atomic force microscopy images for inferring probe shape and biomolecular structure
Atomic force microscopy (AFM) can visualize functional biomolecules near the physiological
condition, but the observed data are limited to the surface height of specimens. Since the …
condition, but the observed data are limited to the surface height of specimens. Since the …
Development of hidden Markov modeling method for molecular orientations and structure estimation from high-speed atomic force microscopy time-series images
T Ogane, D Noshiro, T Ando, A Yamashita… - PLOS Computational …, 2022 - journals.plos.org
High-speed atomic force microscopy (HS-AFM) is a powerful technique for capturing the
time-resolved behavior of biomolecules. However, structural information in HS-AFM images …
time-resolved behavior of biomolecules. However, structural information in HS-AFM images …
Reconstruction of three-dimensional conformations of bacterial ClpB from high-speed atomic-force-microscopy images
ClpB belongs to the cellular disaggretase machinery involved in rescuing misfolded or
aggregated proteins during heat or other cellular shocks. The function of this protein relies …
aggregated proteins during heat or other cellular shocks. The function of this protein relies …
Analyzing atomic force microscopy images of virus-like particles by expectation-maximization
RA McCormick, NM Ralbovsky, W Gilbraith, JP Smith… - npj Vaccines, 2024 - nature.com
Abstract Analysis of virus-like particles (VLPs) is an essential task in optimizing their
implementation as vaccine antigens for virus-initiated diseases. Interrogating VLP …
implementation as vaccine antigens for virus-initiated diseases. Interrogating VLP …