Dual-Parameter Modeling of Molecular Binding Lifetime Distribution for Ultrasensitive Biosensors

da Costa JP, Santos PSM, Vitorino R, Rocha-Santos T, Duarte AC. How low can you go? A current perspective on low-abundance proteomics. TrAC. Trends Anal Chem. 2017;93:171–82.

Article  Google Scholar 

Kelley SO. What are clinically relevant levels of cellular and biomolecular analytes? ACS Sens. 2017;2(2):193–7.

Article  PubMed  CAS  Google Scholar 

Yang Y, Zeng Q, Luo Q, Wang C. Dynamic Single-Molecule sensors: A theoretical study. ACS Sens. 2022;7(7):2069–74.

Article  PubMed  CAS  Google Scholar 

Zeng Q, Zhou X, Yang Y, Sun Y, Wang J, Zhai C, Li J, Yu H. Dynamic single-molecule sensing by actively tuning binding kinetics for ultrasensitive biomarker detection. Proc Natl Acad Sci. 2022;119(10):pe2120379119.

Article  Google Scholar 

Rissin DM, Kan CW, Campbell TG, Howes SC, Fournier DR, Song L, Piech T, Patel PP, Chang L, Rivnak AJ, Ferrell EP, Randall JD, Provuncher GK, Walt DR, Duffy DC. Single-molecule enzyme-linked immunosorbent assay detects serum proteins at subfemtomolar concentrations. Nat Biotechnol. 2010;28(6):595–9.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Cohen L, Walt DR. Single-Molecule arrays for protein and nucleic acid analysis. Annual Rev Anal Chem. 2017;10(10):p345–363.

Article  Google Scholar 

Hariri AA, Newman SS, Tan S, Mamerow D, Adams AM, Maganzini N, Zhong BL, Eisenstein M, Dunn AR, Soh HT. Improved immunoassay sensitivity and specificity using single-molecule colocalization. Nat Commun. 2022;13(1):5359.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Gooding JJ, Gaus K. Single-Molecule sensors: challenges and opportunities for quantitative analysis. Angew Chem Int Ed. 2016;55(38):11354–66.

Article  CAS  Google Scholar 

Frutiger A, Tanno A, Hwu S, Tiefenauer RF, Vörös J, Nakatsuka N. Nonspecific Binding—Fundamental concepts and consequences for biosensing applications. Chem Rev. 2021;121(13):8095–160.

Article  PubMed  CAS  Google Scholar 

Binz HK, Stumpp MT, Forrer P, Amstutz P. Designing repeat proteins: Well-expressed, soluble and stable proteins from combinatorial libraries of consensus Ankyrin repeat proteins. J Mol Biol. 2003;332(2):489–503.

Article  PubMed  CAS  Google Scholar 

Silverman J, Lu Q, Bakker A, To W, Duguay A, Alba BM, Smith R, Rivas A, Li P, Le H, Whitehorn E, Moore KW, Swimmer C, Perlroth V, Vogt M, Kolkman J. W P C stemmer. Multivalent avimer proteins evolved by exon shuffling of a family of human receptor domains. Nat Biotechnol. 2005;23(12):1556–61.

Article  PubMed  CAS  Google Scholar 

Nakamura R, Muguruma H, Ikebukuro K, Sasaki S, Nagata R, Karube I, Pedersen H. A Plasma-Polymerized film for surface plasmon resonance Immunosensing. Anal Chem. 1997;69(22):4649–52.

Article  CAS  Google Scholar 

Chapman RG, Ostuni E, Takayama S, Holmlin RE, Yan L, Whitesides GM. Surveying for surfaces that resist the adsorption of proteins. J Am Chem Soc. 2000;122(34):8303–4.

Article  CAS  Google Scholar 

Ahmed N, Barker G, Oliva K, Garfin D, Talmadge K, Georgiou H, Quinn M, Rice G. An approach to remove albumin for the proteomic analysis of low abundance biomarkers in human serum. Proteomics. 2003;3(10):1980–7.

Article  PubMed  CAS  Google Scholar 

Boschetti E, Righetti PG. The proteominer in the proteomic arena: A non-depleting tool for discovering low-abundance species. J Proteom. 2008;71(3):255–64.

Article  CAS  Google Scholar 

Ma G, Zhang P, Zhou X, Wan Z, Wang S. Label-Free Single-Molecule pulldown for the detection of released cellular protein complexes. ACS Cent Sci. 2022;8(9):1272–81.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Zhang P, Ma G, Dong W, Wan Z, Wang S, Tao N. Plasmonic scattering imaging of single proteins and binding kinetics. Nat Methods. 2020;17(10):1010–7.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Zhang P, Ma G, Wan Z, Wang S. Quantification of Single-Molecule protein binding kinetics in complex media with Prism-Coupled plasmonic scattering imaging. ACS Sens. 2021;6(3):1357–66.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Zhang P, Zhou L, Wang R, Zhou X, Jiang J, Wan Z, Wang S. Evanescent scattering imaging of single protein binding kinetics and DNA conformation changes. Nat Commun. 2022;13(1):2298.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Johnson-Buck A, Su X, Giraldez MD, Zhao M, Tewari M, Walter NG. Kinetic fingerprinting to identify and count single nucleic acids. Nat Biotechnol. 2015;33(7):730–2.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Visser EWA, Yan J, van Ijzendoorn LJ, Prins MWJ. Continuous biomarker monitoring by particle mobility sensing with single molecule resolution. Nat Commun. 2018;9(1):2541.

Article  PubMed  PubMed Central  Google Scholar 

Buskermolen AD, Lin Y-T, van Smeden L, van Haaften RB, Yan J, Sergelen K, de Jong AM. M W J prins. Continuous biomarker monitoring with single molecule resolution by measuring free particle motion. Nat Commun. 2022;13(1):6052.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Chatterjee T, Knappik A, Sandford E, Tewari M, Choi SW, Strong WB, Thrush EP, Oh KJ, Liu N, Walter NG, Johnson-Buck A. Direct kinetic fingerprinting and digital counting of single protein molecules. ProcNatl Acad Sci. 2020;117(37):22815–22.

Gopalan D, Nair PR. Dynamic tracking biosensors: finding needles in a haystack. ACS Sens. 2020;5(5):1374–80.

Article  PubMed  CAS  Google Scholar 

Bautista-Sánchez D, Arriaga-Canon C, Pedroza-Torres A, De La Rosa-Velázquez IA, González-Barrios R, Contreras-Espinosa L, Montiel-Manríquez R, Castro-Hernández C, Fragoso-Ontiveros V, Álvarez-Gómez RM, Herrera LA. The promising role of miR-21 as a cancer biomarker and its importance in RNA-Based therapeutics. Mol Therapy - Nucleic Acids. 2020;20:409–20.

Article  PubMed  Google Scholar 

Zhang K, Wang Y-Y, Xu Y, Zhang L, Zhu J, Si P-C, Wang Y-W, Ma R. A two-miRNA signature of upregulated miR-185-5p and miR-362-5p as a blood biomarker for breast cancer. Pathol - Res Pract. 2021;222:153458.

Article  PubMed  CAS  Google Scholar 

Dupuis NF, Holmstrom ED, Nesbitt DJ. Single-molecule kinetics reveal cation-promoted DNA duplex formation through ordering of single-stranded helices. Biophys J. 2013;105(3):756–66.

Article  PubMed  PubMed Central  CAS  Google Scholar 

Comments (0)

No login
gif