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articles

  1. PREPRINT: Domurat-Sousa, K.; Poe, C. M.; McDaniel, M. S.; Spieglan, E.; Shida, J. F.; Angelico, E.; Adams, B. W.; La Riviere, P. J.; Frisch, H. J.; Squires, A. H. Simulation of a Low-Z-Medium Detector for Low-Dose High-Resolution TOF-PET. arXiv 2024. DOI: https://doi.org/10.48550/ARXIV.2305.07173.
  2. IN PRESS: Chu, J.*; Ejaz, A.*; Lin, K. M.; Joseph, M. R.; Coraor, A. E.; Drummond, D. A.; Squires, A. H. Single-Molecule Fluorescence Multiplexing by Multi-Parameter Spectroscopic Detection of Nanostructured FRET Labels. (Accepted in principle to Nature Nanotechnology) 2024. DOI: https://doi.org/10.48550/ARXIV.2307.01614.
  3. Cook, A. L.; Dearborn, M. A.; Anderberg, T. M.; Vaidya, K. D.; Jureller, J. E.; Esser-Kahn, A. P.; Squires, A. H. Polymer Patterning by Laser-Induced Multi-Point Initiation of Frontal Polymerization. ACS Applied Materials & Interfaces 2024. DOI: https://pubs.acs.org/doi/10.1021/acsami.4c00216.
  4. Ali, A.; Garde, R.; Schaffer, O. C.; Bard, J. A. M.; Husain, K.; Kik, S. K.; Davis, K. A.; Luengo-Woods, S.; Igarashi, M. G.; Drummond, D. A.; Squires, A. H.; Pincus, D. Adaptive Preservation of Orphan Ribosomal Proteins in Chaperone-Dispersed Condensates. Nat Cell Biol 2023, 25 (11), 1691–1703. DOI: https://doi.org/10.1038/s41556-023-01253-2.
  5. Ejaz, A.; Vaidya, K.; Squires, A. H. Dynamic Excitation for Photophysical Control and Enhanced FRET Sensing in an Anti-Brownian ELectrokinetic (ABEL) Trap. In Optical Trapping and Optical Micromanipulation XX; Dholakia, K., Spalding, G. C., Eds.; SPIE: San Diego, United States, 2023; p 106. DOI: https://doi.org/10.1117/12.2680788.
  6. Topel, M.; Ejaz, A.; Squires, A.; Ferguson, A. L. Learned Reconstruction of Protein Folding Trajectories from Noisy Single-Molecule Time Series. J. Chem. Theory Comput. 2023, 19 (14), 4654–4667. DOI: https://doi.org/10.1021/acs.jctc.2c00920.
  7. Squires, A. H.; Wang, Q.; Dahlberg, P. D.; Moerner, W. E. A Bottom-up Perspective on Photodynamics and Photoprotection in Light-Harvesting Complexes Using Anti-Brownian Trapping. J. Chem. Phys. 2022, 156 (7), 070901. DOI: 10.1063/5.0079042.
  8. Shida, J. F.; Spieglan, E.; Adams, B. W.; Angelico, E.; Domurat-Sousa, K.; Elagin, A.; Frisch, H. J.; La Riviere, P.; Squires, A. H. Low-Dose High-Resolution TOF-PET Using Ionization-Activated Multi-State Low-Z Detector Media. Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment 2021, 1017, 165801. DOI: 10.1016/j.nima.2021.165801.
  9. Anderegg, L.; Doyle, J.; Gardel, M. L.; Gupta, A.; Hallas, C.; Lensky, Y.; Love, N. G.; Lucas, B. A.; Mazenc, E.; Meisenhelder, C.; Pillarisetti, A.; Ranard, D.; Squires, A. H.; Vechakul, J.; Vilas, N. B.; Williams, S.; Wilson, D.; Chen, T. N.; the N95DECON consortium. Heat and Humidity for Bioburden Reduction of N95 Filtering Facepiece Respirators. Applied Biosafety 2021, 26 (2), 80–89. DOI: 10.1089/apb.20.0053.

    10. Older work:

  10. Lavania, A. A.; Squires, A. H.; Dahlberg, P. D.; Moerner, W. E. Interferometric Scattering for Fluorescence-Free Electrokinetic Trapping of Single Nanoparticles in Free Solution. In Single Molecule Spectroscopy and Superresolution Imaging XIII; Gregor, I., Erdmann, R., Koberling, F., Eds.; SPIE: San Francisco, United States, 2020; p 31. DOI: https://doi.org/10.1117/12.2546638.
  11. Gilboa, T.; Zvuloni, E.; Zrehen, A.; Squires, A. H.; Meller, A. Automated, Ultra‐Fast Laser‐Drilling of Nanometer Scale Pores and Nanopore Arrays in Aqueous Solutions. Advanced Functional Materials 2020, 30 (18), 1900642. DOI: 10.1038/nnano.2013.221.
  12. Squires, A. H.; Lavania, A. A.; Dahlberg, P. D.; Moerner, W. Interferometric Scattering Enables Fluorescence-Free Electrokinetic Trapping of Single Nanoparticles in Free Solution. Nano letters 2019, 19 (6), 4112–4117. DOI: 10.1021/acs.nanolett.9b01514.
  13. Squires, A. H.; Dahlberg, P. D.; Liu, H.; Magdaong, N. C. M.; Blankenship, R. E.; Moerner, W. Single-Molecule Trapping and Spectroscopy Reveals Photophysical Heterogeneity of Phycobilisomes Quenched by Orange Carotenoid Protein. Nature communications 2019, 10 (1), 1–12. DOI: 10.1038/s41467-019-09084-2.
  14. Varongchayakul, N.; Hersey, J. S.; Squires, A.; Meller, A.; Grinstaff, M. W. A Solid‐State Hard Microfluidic–Nanopore Biosensor with Multilayer Fluidics and On‐Chip Bioassay/Purification Chamber. Adv. Funct. Mater. 2018, 28 (50), 1804182. DOI: 10.1002/adfm.201804182.
  15. Rudnizky, S.; Khamis, H.; Malik, O.; Squires, A. H.; Meller, A.; Melamed, P.; Kaplan, A. Single-Molecule DNA Unzipping Reveals Asymmetric Modulation of a Transcription Factor by Its Binding Site Sequence and Context. Nucleic acids research 2018, 46 (3), 1513–1524. DOI: 10.1093/nar/gkx1252.
  16. Squires, A. H.; Moerner, W. Direct Single-Molecule Measurements of Phycocyanobilin Photophysics in Monomeric C-Phycocyanin. Proceedings of the National Academy of Sciences 2017, 114 (37), 9779–9784. DOI: 10.1073/pnas.1705435114.
  17. Squires, A. H.; Gilboa, T.; Torfstein, C.; Varongchayakul, N.; Meller, A. Single-Molecule Characterization of DNA–Protein Interactions Using Nanopore Biosensors. In Methods in enzymology; Elsevier, 2017; Vol. 582, pp 353–385. DOI: 10.1016/bs.mie.2016.08.010.
  18. Squires, A. H.; Atas, E.; Meller, A. Genomic Pathogen Typing Using Solid-State Nanopores. PLoS One 2015, 10 (11), e0142944. DOI: 10.1371/journal.pone.0142944.
  19. Squires, A.; Atas, E.; Meller, A. Nanopore Sensing of Individual Transcription Factors Bound to DNA. Scientific reports 2015, 5 (1), 1–11. DOI: 10.1038/srep11643.
  20. Assad, O. N.*; Di Fiori, N.*; Squires, A. H.; Meller, A. Two Color DNA Barcode Detection in Photoluminescence Suppressed Silicon Nitride Nanopores. Nano Letters 2015, 15 (1), 745–752. DOI: 10.1021/nl504459c.
  21. Anderson, B. N.; Assad, O. N.; Gilboa, T.; Squires, A. H.; Bar, D.; Meller, A. Probing Solid-State Nanopores with Light for the Detection of Unlabeled Analytes. ACS nano 2014, 8 (11), 11836–11845. DOI: 10.1021/nn505545h.
  22. Squires, A. H.; Hersey, J. S.; Grinstaff, M. W.; Meller, A. A Nanopore–Nanofiber Mesh Biosensor to Control DNA Translocation. Journal of the American Chemical Society 2013, 135 (44), 16304–16307. DOI: 10.1021/ja408685x.
  23. Di Fiori, N.; Squires, A.; Bar, D.; Gilboa, T.; Moustakas, T. D.; Meller, A. Optoelectronic Control of Surface Charge and Translocation Dynamics in Solid-State Nanopores. Nature Nanotechnology 2013, 8 (12), 946–951. DOI: 10.1038/nnano.2013.221.

book chapters

  1. Squires, A. H.; Cohen, A. E.; Moerner, W. E. Anti-Brownian Traps. In Encyclopedia of Biophysics; European Biophysical Societies, Roberts, G., Watts, A., Eds.; Springer Berlin Heidelberg: Berlin, Heidelberg, 2018; pp 1–8. DOI: 10.1007/978-3-642-35943-9_486-1.
  2. Wanunu, M.; Squires, A.; Meller, A. Capture and Translocation of Nucleic Acids into Sub-5 Nm Solid-State Nanopores. In Nanopores; Iqbal, S. M., Bashir, R., Eds.; Springer US: Boston, MA, 2011; pp 227–254. DOI: 10.1007/978-1-4419-8252-0_10.

Commentary

  1. Squires, A. H. Electrokinetic Manipulation of a Nanowire. Nat. Nanotechnol. 2023, 18 (10), 1128–1129. DOI: https://doi.org/10.1038/s41565-023-01459-3.
  2. Squires, A. H. Engineering Improved Measurement and Actuation for Nanoscale Biophysics. Biophys Rev 2020, 12 (5), 1107–1109. DOI: 10.1007/s12551-020-00751-z.
  3. Squires, A.; Meller, A. DNA Capture and Translocation through Nanoscale Pores—a Fine Balance of Electrophoresis and Electroosmosis. Biophysical Journal 2013, 105 (3), 543–544. DOI: https://doi.org/10.1016/j.bpj.2013.06.008.

patents

  1. Frisch HJ, Angelico E, Adams B, Spieglan E, Shida JF, Elagin A, La Riviere P, and Squires AH. Positron Emission Tomography Systems Based on Ionization-Activated Organic Fluor Molecules. (UCHI 21-T-019) U.S. Provisional Application PCT/US21/56535 filed on 10/26/2021.
  2. Grinstaff, M.; Meller, A.; Hersey, J.; Squires, A. Fiber Coated Nanopores. 10866230, December 15, 2020. Link: patent/US10866230B2.