Single-molecule studies of protein folding with optical tweezers

C Bustamante, L Alexander, K Maciuba… - Annual review of …, 2020 - annualreviews.org
Manipulation of individual molecules with optical tweezers provides a powerful means of
interrogating the structure and folding of proteins. Mechanical force is not only a relevant …

Fluorescence Microscopy: a statistics-optics perspective

M Fazel, KS Grussmayer, B Ferdman, A Radenovic… - Reviews of Modern …, 2024 - APS
Fundamental properties of light unavoidably impose features on images collected using
fluorescence microscopes. Accounting for these features is often critical in quantitatively …

An alternative framework for fluorescence correlation spectroscopy

S Jazani, I Sgouralis, OM Shafraz, S Sivasankar… - Biophysical …, 2019 - cell.com
Fluorescence correlation spectroscopy (FCS) is a flexible and widely used tool routinely
exploited in vivo. While FCS provides estimates of dynamical quantities, such as diffusion …

Resolving molecular heterogeneity with single-molecule centrifugation

Y Luo, J Chang, D Yang, JS Bryan IV… - Journal of the …, 2023 - ACS Publications
For many classes of biomolecules, population-level heterogeneity is an essential aspect of
biological function─ from antibodies produced by the immune system to post-translationally …

Observation of processive telomerase catalysis using high-resolution optical tweezers

EM Patrick, JD Slivka, B Payne, MJ Comstock… - Nature chemical …, 2020 - nature.com
Telomere maintenance by telomerase is essential for continuous proliferation of human cells
and is vital for the survival of stem cells and 90% of cancer cells. To compensate for …

Single-photon smFRET. I: Theory and conceptual basis

A Saurabh, M Fazel, M Safar, I Sgouralis, S Pressé - Biophysical Reports, 2023 - cell.com
We present a unified conceptual framework and the associated software package for single-
molecule Förster resonance energy transfer (smFRET) analysis from single-photon arrivals …

Pitching single-focus confocal data analysis one photon at a time with Bayesian nonparametrics

M Tavakoli, S Jazani, I Sgouralis, OM Shafraz… - Physical review X, 2020 - APS
Fluorescence time traces are used to report on dynamical properties of molecules. The basic
unit of information in these traces is the arrival time of individual photons, which carry …

Single-photon smFRET. III. Application to pulsed illumination

M Safar, A Saurabh, B Sarkar, M Fazel, K Ishii… - Biophysical Reports, 2022 - cell.com
Förster resonance energy transfer (FRET) using pulsed illumination has been pivotal in
leveraging lifetime information in FRET analysis. However, there remain major challenges in …

Extraction of rapid kinetics from smFRET measurements using integrative detectors

Z Kilic, I Sgouralis, W Heo, K Ishii, T Tahara… - Cell Reports Physical …, 2021 - cell.com
Summary Hidden Markov models (HMMs) are used to learn single-molecule kinetics across
a range of experimental techniques. By their construction, HMMs assume that single …

Energetic dependencies dictate folding mechanism in a complex protein

K Liu, X Chen, CM Kaiser - Proceedings of the National …, 2019 - National Acad Sciences
Large proteins with multiple domains are thought to fold cotranslationally to minimize
interdomain misfolding. Once folded, domains interact with each other through the formation …