General strategy to improve the photon budget of thiol-conjugated cyanine dyes

Y Zhang, C Yang, S Peng, J Ling, P Chen… - Journal of the …, 2023 - ACS Publications
Maleimide-cysteine chemistry has been a routine practice for the site-specific labeling of
fluorophores to proteins since the 1950s. This approach, however, cannot bring out the best …

Cas9 interrogates DNA in discrete steps modulated by mismatches and supercoiling

IE Ivanov, AV Wright, JC Cofsky… - Proceedings of the …, 2020 - National Acad Sciences
The CRISPR-Cas9 nuclease has been widely repurposed as a molecular and cell biology
tool for its ability to programmably target and cleave DNA. Cas9 recognizes its target site by …

Single molecule analysis of effects of non-canonical guide RNAs and specificity-enhancing mutations on Cas9-induced DNA unwinding

IC Okafor, D Singh, Y Wang, M Jung… - Nucleic acids …, 2019 - academic.oup.com
Cas9 has made a wide range of genomic manipulation possible. However, its specificity
continues to be a challenge. Non-canonical gRNAs and new engineered variants of Cas9 …

Supervised multi-frame dual-channel denoising enables long-term single-molecule FRET under extremely low photon budget

Y Miao, Y Cheng, Y Xia, Y Hei, W Wang, Q Dai… - Nature …, 2025 - nature.com
Camera-based single-molecule techniques have emerged as crucial tools in revolutionizing
the understanding of biochemical and cellular processes due to their ability to capture …

Three-color single-molecule FRET and fluorescence lifetime analysis of fast protein folding

J Yoo, JM Louis, IV Gopich… - The Journal of Physical …, 2018 - ACS Publications
We describe the theory, experiment, and analysis of three-color Förster resonance energy
transfer (FRET) spectroscopy for probing conformational dynamics of a fast-folding protein …

Correlated Single-Molecule Magnetic Tweezers and Fluorescence Measurements of DNA-Enzyme Interactions

J Madariaga-Marcos, P Aldag, DJ Kauert… - Single Molecule Analysis …, 2023 - Springer
Combining force spectroscopy and fluorescence microscopy provides a substantial
improvement to the single-molecule toolbox by allowing simultaneous manipulation and …

Quantitative protein detection using single molecule imaging enzyme-linked immunosorbent assay (iELISA)

C Wu, Y Shan, X Wu, S Wang, F Liu - Analytical biochemistry, 2019 - Elsevier
Protein detection is a key step in molecular biology research and is required for pathogen
and protein marker testing for disease diagnostics. Here, single molecule imaging enzyme …

Oaaep1-mediated enzymatic synthesis and immobilization of polymerized protein for single-molecule force spectroscopy

Y Deng, B Zheng, Y Liu, S Shi, J Nie, T Wu… - JoVE (Journal of …, 2020 - jove.com
Chemical and bio-conjugation techniques have been developed rapidly in recent years and
allow the building of protein polymers. However, a controlled protein polymerization process …

[HTML][HTML] Molecular mechanisms of Streptococcus pyogenes Cas9: a single-molecule perspective

Q Zhang, Z Chen, B Sun - Biophysics Reports, 2021 - ncbi.nlm.nih.gov
Cas9 is an RNA-guided endonuclease from the type II CRISPR-Cas system that employs
RNA–DNA base pairing to target and cleave foreign DNA in bacteria. Due to its robust and …

Recent advancement of light‐based single‐molecule approaches for studying biomolecules

B Croop, C Zhang, Y Lim, RM Gelfand… - … : Systems Biology and …, 2019 - Wiley Online Library
Recent advances in single‐molecule techniques have led to new discoveries in analytical
chemistry, biophysics, and medicine. Understanding the structure and behavior of single …