Publications

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2018

  • Ackerman, DS, Altun, B, Kolodieznyi, D, Bruchez, MP, Tsourkas, A, Jarvik, JW. Antibody-Linked Fluorogen-Activating Proteins for Antigen Detection and Cell Ablation. Bioconjug Chem. 2019; 30 (1):63-69. PubMed PMID:30543409.
  • Shelke, SA, Shao, Y, Laski, A, Koirala, D, Weissman, BP, Fuller, JR, Tan, X, Constantin, TP, Waggoner, AS, Bruchez, MP, Armitage, BA, Piccirilli, JA. Structural basis for activation of fluorogenic dyes by an RNA aptamer lacking a G-quadruplex motif. Nat Commun. 2018; 9 (1):4542. PubMed PMID:30382099.
  • Tan, X, Bruchez, MP, Armitage, BA. Closing the Loop: Constraining TAT Peptide by γPNA Hairpin for Enhanced Cellular Delivery of Biomolecules. Bioconjug Chem. 2018; 29 (9):2892-2898. PubMed PMID:30130094.
  • Zeng, G, Wang, Y, Bruchez, MP, Liang, FS. Self-Reporting Chemically Induced Protein Proximity System Based on a Malachite Green Derivative and the L5** Fluorogen Activating Protein. Bioconjug Chem. 2018; 29 (9):3010-3015. PubMed PMID:30016083.
  • Hager, NA, Krasowski, CJ, Mackie, TD, Kolb, AR, Needham, PG, Augustine, AA, Dempsey, A, Szent-Gyorgyi, C, Bruchez, MP, Bain, DJ, Kwiatkowski, AV, O’Donnell, AF, Brodsky, JL. Select α-arrestins control cell-surface abundance of the mammalian Kir2.1 potassium channel in a yeast model. J Biol Chem. 2018; 293 (28):11006-11021. PubMed PMID:29784874.
  • Lin, Y, Schmidt, BF, Bruchez, MP, McManus, CJ. Structural analyses of NEAT1 lncRNAs suggest long-range RNA interactions that may contribute to paraspeckle architecture. Nucleic Acids Res. 2018; 46 (7):3742-3752. PubMed PMID:29394378.
  • Bruchez, MP. Through, rather than across. Nat Mater. 2018; 17 (2):112-113. PubMed PMID:31745265.
  • Perkins, LA, Fisher, GW, Naganbabu, M, Schmidt, BF, Mun, F, Bruchez, MP. High-Content Surface and Total Expression siRNA Kinase Library Screen with VX-809 Treatment Reveals Kinase Targets that Enhance F508del-CFTR Rescue. Mol Pharm. 2018; 15 (3):759-767. PubMed PMID:29384380.
  • Bruchez, MP. DNA nanostructures: Through, rather than across. Nat Mater. 2018; 17 (2):112-113. PubMed PMID:29358770.
  • Perkins, LA, Yan, Q, Schmidt, BF, Kolodieznyi, D, Saurabh, S, Larsen, MB, Watkins, SC, Kremer, L, Bruchez, MP. Genetically Targeted Ratiometric and Activated pH Indicator Complexes (TRApHIC) for Receptor Trafficking. Biochemistry. 2018; 57 (5):861-871. PubMed PMID:29283245.

2017

  • Larsen, MB, Perez Verdaguer, M, Schmidt, BF, Bruchez, MP, Watkins, SC, Sorkin, A. Generation of endogenous pH-sensitive EGF receptor and its application in high-throughput screening for proteins involved in clathrin-mediated endocytosis. Elife. 2019; 8 :. PubMed PMID:31066673.
  • Pratt, CP, Kuljis, DA, Homanics, GE, He, J, Kolodieznyi, D, Dudem, S, Hollywood, MA, Barth, AL, Bruchez, MP. Tagging of Endogenous BK Channels with a Fluorogen-Activating Peptide Reveals β4-Mediated Control of Channel Clustering in Cerebellum. Front Cell Neurosci. 2017; 11 :337. PubMed PMID:29163049.
  • Lorenz-Guertin, JM, Wilcox, MR, Zhang, M, Larsen, MB, Pilli, J, Schmidt, BF, Bruchez, MP, Johnson, JW, Waggoner, AS, Watkins, SC, Jacob, TC. A versatile optical tool for studying synaptic GABAA receptor trafficking. J Cell Sci. 2017; 130 (22):3933-3945. PubMed PMID:29025969.
  • Tan, X, Constantin, TP, Sloane, KL, Waggoner, AS, Bruchez, MP, Armitage, BA. Fluoromodules Consisting of a Promiscuous RNA Aptamer and Red or Blue Fluorogenic Cyanine Dyes: Selection, Characterization, and Bioimaging. J Am Chem Soc. 2017; 139 (26):9001-9009. PubMed PMID:28644615.
  • Shiwarski, DJ, Darr, M, Telmer, CA, Bruchez, MP, Puthenveedu, MA. PI3K class II α regulates δ-opioid receptor export from the trans-Golgi network. Mol Biol Cell. 2017; 28 (16):2202-2219. PubMed PMID:28566554.
  • Wang, Y, Ballou, B, Schmidt, BF, Andreko, S, St Croix, CM, Watkins, SC, Bruchez, MP. Affibody-targeted fluorogen activating protein for in vivo tumor imaging. Chem Commun (Camb). 2017; 53 (12):2001-2004. PubMed PMID:28120951.

2016

  • Naganbabu, M, Perkins, LA, Wang, Y, Kurish, J, Schmidt, BF, Bruchez, MP. Multiexcitation Fluorogenic Labeling of Surface, Intracellular, and Total Protein Pools in Living Cells. Bioconjug Chem. 2016; 27 (6):1525-31. PubMed PMID:27159569.
  • Oyaghire, SN, Cherubim, CJ, Telmer, CA, Martinez, JA, Bruchez, MP, Armitage, BA. RNA G-Quadruplex Invasion and Translation Inhibition by Antisense γ-Peptide Nucleic Acid Oligomers. Biochemistry. 2016; 55 (13):1977-88. PubMed PMID:26959335.
  • He, J, Wang, Y, Missinato, MA, Onuoha, E, Perkins, LA, Watkins, SC, St Croix, CM, Tsang, M, Bruchez, MP. A genetically targetable near-infrared photosensitizer. Nat Methods. 2016; 13 (3):263-8. PubMed PMID:26808669.

2015

  • Zhang, M, Chakraborty, SK, Sampath, P, Rojas, JJ, Hou, W, Saurabh, S, Thorne, SH, Bruchez, MP, Waggoner, AS. Fluoromodule-based reporter/probes designed for in vivo fluorescence imaging. J Clin Invest. 2015; 125 (10):3915-27. PubMed PMID:26348895.
  • Saurabh, S, Zhang, M, Mann, VR, Costello, AM, Bruchez, MP. Kinetically Tunable Photostability of Fluorogen-Activating Peptide-Fluorogen Complexes. Chemphyschem. 2015; 16 (14):2974-80. PubMed PMID:26310607.
  • Pratt, CP, He, J, Wang, Y, Barth, AL, Bruchez, MP. Fluorogenic Green-Inside Red-Outside (GIRO) Labeling Approach Reveals Adenylyl Cyclase-Dependent Control of BKα Surface Expression. Bioconjug Chem. 2015; 26 (9):1963-71. PubMed PMID:26301573.
  • Canady, TD, Telmer, CA, Oyaghire, SN, Armitage, BA, Bruchez, MP. In Vitro Reversible Translation Control Using γPNA Probes. J Am Chem Soc. 2015; 137 (32):10268-75. PubMed PMID:26241615.
  • Magenau, AJ, Saurabh, S, Andreko, SK, Telmer, CA, Schmidt, BF, Waggoner, AS, Bruchez, MP. Genetically targeted fluorogenic macromolecules for subcellular imaging and cellular perturbation. Biomaterials. 2015; 66 :1-8. PubMed PMID:26183934.
  • Bruchez, MP. Dark dyes-bright complexes: fluorogenic protein labeling. Curr Opin Chem Biol. 2015; 27 :18-23. PubMed PMID:26056741.
  • Yan, Q, Bruchez, MP. Advances in chemical labeling of proteins in living cells. Cell Tissue Res. 2015; 360 (1):179-94. PubMed PMID:25743694.
  • Telmer, CA, Verma, R, Teng, H, Andreko, S, Law, L, Bruchez, MP. Rapid, specific, no-wash, far-red fluorogen activation in subcellular compartments by targeted fluorogen activating proteins. ACS Chem Biol. 2015; 10 (5):1239-46. PubMed PMID:25650487.
  • Yan, Q, Schmidt, BF, Perkins, LA, Naganbabu, M, Saurabh, S, Andreko, SK, Bruchez, MP. Near-instant surface-selective fluorogenic protein quantification using sulfonated triarylmethane dyes and fluorogen activating proteins. Org Biomol Chem. 2015; 13 (7):2078-86. PubMed PMID:25520058.
  • Wang, Y, Telmer, CA, Schmidt, BF, Franke, JD, Ort, S, Arndt-Jovin, DJ, Bruchez, MP. Fluorogen activating protein-affibody probes: modular, no-wash measurement of epidermal growth factor receptors. Bioconjug Chem. 2015; 26 (1):137-44. PubMed PMID:25490520.
  • Ganesan, V, Schmidt, B, Avula, R, Cooke, D, Maggiacomo, T, Tellin, L, Ascherman, DP, Bruchez, MP, Minden, J. Immuno-proteomics: Development of a novel reagent for separating antibodies from their target proteins. Biochim Biophys Acta. 2015; 1854 (6):592-600. PubMed PMID:25466873.
  • Schwartz, SL, Yan, Q, Telmer, CA, Lidke, KA, Bruchez, MP, Lidke, DS. Fluorogen-activating proteins provide tunable labeling densities for tracking FcεRI independent of IgE. ACS Chem Biol. 2015; 10 (2):539-46. PubMed PMID:25343439.

2014

  • Saurabh, S, Beck, LE, Maji, S, Baty, CJ, Wang, Y, Yan, Q, Watkins, SC, Bruchez, MP. Multiplexed modular genetic targeting of quantum dots. ACS Nano. 2014; 8 (11):11138-46. PubMed PMID:25380615.
  • Tan, X, Wang, Y, Armitage, BA, Bruchez, MP. Label-free molecular beacons for biomolecular detection. Anal Chem. 2014; 86 (21):10864-9. PubMed PMID:25287123.
  • Saunders, MJ, Block, E, Sorkin, A, Waggoner, AS, Bruchez, MP. A bifunctional converter: fluorescein quenching scFv/fluorogen activating protein for photostability and improved signal to noise in fluorescence experiments. Bioconjug Chem. 2014; 25 (8):1556-64. PubMed PMID:25072845.
  • Tan, C, Saurabh, S, Bruchez, MP, Schwartz, R, LeDuc, P. Reply to ‘Complexity of molecular crowding in cell-free enzymatic reaction networks’. Nat Nanotechnol. 2014; 9 (6):407-8. PubMed PMID:24894472.
  • Tan, X, Dey, SK, Telmer, C, Zhang, X, Armitage, BA, Bruchez, MP. Aptamers act as activators for the thrombin mediated-hydrolysis of peptide substrates. Chembiochem. 2014; 15 (2):205-8. PubMed PMID:24339381.
  • Lan, L, Nakajima, S, Wei, L, Sun, L, Hsieh, CL, Sobol, RW, Bruchez, M, Van Houten, B, Yasui, A, Levine, AS. Novel method for site-specific induction of oxidative DNA damage reveals differences in recruitment of repair proteins to heterochromatin and euchromatin. Nucleic Acids Res. 2014; 42 (4):2330-45. PubMed PMID:24293652.
  • Yan, Q, Schwartz, SL, Maji, S, Huang, F, Szent-Gyorgyi, C, Lidke, DS, Lidke, KA, Bruchez, MP. Localization microscopy using noncovalent fluorogen activation by genetically encoded fluorogen-activating proteins. Chemphyschem. 2014; 15 (4):687-695. PubMed PMID:24194371.

2013

  • Szent-Gyorgyi, C, Stanfield, RL, Andreko, S, Dempsey, A, Ahmed, M, Capek, S, Waggoner, AS, Wilson, IA, Bruchez, MP. Malachite green mediates homodimerization of antibody VL domains to form a fluorescent ternary complex with singular symmetric interfaces. J Mol Biol. 2013; 425 (22):4595-613. PubMed PMID:23978698.
  • Xu, J, Chang, J, Yan, Q, Dertinger, T, Bruchez, M, Weiss, S. Labeling Cytosolic Targets in Live Cells with Blinking Probes. J Phys Chem Lett. 2013; 4 (13):2138-2146. PubMed PMID:23930154.
  • Tan, C, Saurabh, S, Bruchez, MP, Schwartz, R, Leduc, P. Molecular crowding shapes gene expression in synthetic cellular nanosystems. Nat Nanotechnol. 2013; 8 (8):602-8. PubMed PMID:23851358.

2012

  • Ballou, B, Andreko, SK, Osuna-Highley, E, McRaven, M, Catalone, T, Bruchez, MP, Hope, TJ, Labib, ME. Nanoparticle transport from mouse vagina to adjacent lymph nodes. PLoS One. 2012; 7 (12):e51995. PubMed PMID:23284844.
  • Yushchenko, DA, Zhang, M, Yan, Q, Waggoner, AS, Bruchez, MP. Genetically targetable and color-switching fluorescent probe. Chembiochem. 2012; 13 (11):1564-8. PubMed PMID:22777954.
  • Maji, S, Bruchez, MP. Inferring biological structures from super-resolution single molecule images using generative models. PLoS One. 2012; 7 (5):e36973. PubMed PMID:22629348.
  • Grover, A, Schmidt, BF, Salter, RD, Watkins, SC, Waggoner, AS, Bruchez, MP. Genetically encoded pH sensor for tracking surface proteins through endocytosis. Angew Chem Int Ed Engl. 2012; 51 (20):4838-42. PubMed PMID:22461279.
  • Saurabh, S, Maji, S, Bruchez, MP. Evaluation of sCMOS cameras for detection and localization of single Cy5 molecules. Opt Express. 2012; 20 (7):7338-49. PubMed PMID:22453414.
  • Shruti, S, Urban-Ciecko, J, Fitzpatrick, JA, Brenner, R, Bruchez, MP, Barth, AL. The brain-specific Beta4 subunit downregulates BK channel cell surface expression. PLoS One. 2012; 7 (3):e33429. PubMed PMID:22438928.
  • Saunders, MJ, Szent-Gyorgyi, C, Fisher, GW, Jarvik, JW, Bruchez, MP, Waggoner, AS. Fluorogen activating proteins in flow cytometry for the study of surface molecules and receptors. Methods. 2012; 57 (3):308-17. PubMed PMID:22366230.
  • Micheva, KD, Bruchez, MP. The gain in brain: novel imaging techniques and multiplexed proteomic imaging of brain tissue ultrastructure. Curr Opin Neurobiol. 2012; 22 (1):94-100. PubMed PMID:21944260.

2011

  • Bruchez, MP. Quantum dots find their stride in single molecule tracking. Curr Opin Chem Biol. 2011; 15 (6):775-80. PubMed PMID:22055494.
  • Mittal, R, Bruchez, MP. Biotin-4-fluorescein based fluorescence quenching assay for determination of biotin binding capacity of streptavidin conjugated quantum dots. Bioconjug Chem. 2011; 22 (3):362-8. PubMed PMID:21314110.

2010

  • Bruchez, M. [From loss of autonomy to dysautonomia: anticholinergic drugs in geriatrics]. Rev Med Suisse. 2010; 6 (270):2146-9. PubMed PMID:21174838.
  • Szent-Gyorgyi, C, Schmidt, BF, Fitzpatrick, JA, Bruchez, MP. Fluorogenic dendrons with multiple donor chromophores as bright genetically targeted and activated probes. J Am Chem Soc. 2010; 132 (32):11103-9. PubMed PMID:20698676.
  • Fisher, GW, Adler, SA, Fuhrman, MH, Waggoner, AS, Bruchez, MP, Jarvik, JW. Detection and quantification of beta2AR internalization in living cells using FAP-based biosensor technology. J Biomol Screen. 2010; 15 (6):703-9. PubMed PMID:20488980.

2009

  • Ballou, B, Ernst, LA, Andreko, S, Fitzpatrick, JA, Lagerholm, BC, Waggoner, AS, Bruchez, MP. Imaging vasculature and lymphatic flow in mice using quantum dots. Methods Mol Biol. 2009; 574 :63-74. PubMed PMID:19685300.
  • Mittal, R, Bruchez, MP. Calibration of Flow Cytometry for Quantitative Quantum Dot Measurements. Curr Protoc Cytom. 2009; Chapter 6 :Unit6.26. PubMed PMID:20953266.
  • Fitzpatrick, JA, Andreko, SK, Ernst, LA, Waggoner, AS, Ballou, B, Bruchez, MP. Long-term persistence and spectral blue shifting of quantum dots in vivo. Nano Lett. 2009; 9 (7):2736-41. PubMed PMID:19518087.
  • Fitzpatrick, JA, Yan, Q, Sieber, JJ, Dyba, M, Schwarz, U, Szent-Gyorgyi, C, Woolford, CA, Berget, PB, Waggoner, AS, Bruchez, MP. STED nanoscopy in living cells using Fluorogen Activating Proteins. Bioconjug Chem. 2009; 20 (10):1843-1847. PubMed PMID:20976031.

2008

  • Daneshvar, H, Nelms, J, Muhammad, O, Jackson, H, Tkach, J, Davros, W, Peterson, T, Vogelbaum, MA, Bruchez, MP, Toms, SA. Imaging characteristics of zinc sulfide shell, cadmium telluride core quantum dots. Nanomedicine (Lond). 2008; 3 (1):21-9. PubMed PMID:18393664.
  • Szent-Gyorgyi, C, Schmidt, BF, Creeger, Y, Fisher, GW, Zakel, KL, Adler, S, Fitzpatrick, JA, Woolford, CA, Yan, Q, Vasilev, KV, Berget, PB, Bruchez, MP, Jarvik, JW, Waggoner, A. Fluorogen-activating single-chain antibodies for imaging cell surface proteins. Nat Biotechnol. 2008; 26 (2):235-40. PubMed PMID:18157118.