1. Zhong, Z, Ning, J, Boggs, EA, Jang, S, Wallace, C, Telmer, C, Bruchez, MP, Ahn, J, Engelman, AN, Zhang, P, Watkins, SC, Ambrose, Z. Cytoplasmic CPSF6 Regulates HIV-1 Capsid Trafficking and Infection in a Cyclophilin A-Dependent Manner. mBio. 2021; 12 (2):. PubMed PMID:33758083.
  2. Liang, P, Ballou, B, Lv, X, Si, W, Bruchez, MP, Huang, W, Dong, X. Monotherapy and Combination Therapy Using Anti-Angiogenic Nanoagents to Fight Cancer. Adv Mater. 2021; :e2005155. PubMed PMID:33684242.
  3. Missinato, MA, Zuppo, DA, Watkins, SC, Bruchez, MP, Tsang, M. Zebrafish heart regenerates after chemoptogenetic cardiomyocyte depletion. Dev Dyn. 2021; :. PubMed PMID:33501711.
  4. Liang, P, Kolodieznyi, D, Creeger, Y, Ballou, B, Bruchez, MP. Subcellular Singlet Oxygen and Cell Death: Location Matters. Front Chem. 2020; 8 :592941. PubMed PMID:33282833.
  5. Berlyoung, AS, Armitage, BA. Assembly and Characterization of RNA/DNA Hetero-G-Quadruplexes. Biochemistry. 2020; 59 (42):4072-4080. PubMed PMID:33048532.
  6. Carpenter, MA, Wang, Y, Telmer, CA, Schmidt, BF, Yang, Z, Bruchez, MP. Protein Proximity Observed Using Fluorogen Activating Protein and Dye Activated by Proximal Anchoring (FAP-DAPA) System. ACS Chem Biol. 2020; 15 (9):2433-2443. PubMed PMID:32786268.
  7. Xie, W, Jiao, B, Bai, Q, Ilin, VA, Sun, M, Burton, CE, Kolodieznyi, D, Calderon, MJ, Stolz, DB, Opresko, PL, St Croix, CM, Watkins, S, Van Houten, B, Bruchez, MP, Burton, EA. Chemoptogenetic ablation of neuronal mitochondria in vivo with spatiotemporal precision and controllable severity. Elife. 2020; 9 :. PubMed PMID:32180546.
  8. Canady, TD, Berlyoung, AS, Martinez, JA, Emanuelson, C, Telmer, CA, Bruchez, MP, Armitage, BA. Enhanced Hybridization Selectivity Using Structured GammaPNA Probes. Molecules. 2020; 25 (4):. PubMed PMID:32098111.
  9. Perkins, LA, Bruchez, MP. Fluorogen activating protein toolset for protein trafficking measurements. Traffic. 2020; 21 (4):333-348. PubMed PMID:32080949.
  10. Yalcintas, EP, Ackerman, DS, Korkmaz, E, Telmer, CA, Jarvik, JW, Campbell, PG, Bruchez, MP, Ozdoganlar, OB. Analysis of In Vitro Cytotoxicity of Carbohydrate-Based Materials Used for Dissolvable Microneedle Arrays. Pharm Res. 2020; 37 (3):33. PubMed PMID:31942659.
  11. Singh, A, Marcoline, FV, Veshaguri, S, Kao, AW, Bruchez, M, Mindell, JA, Stamou, D, Grabe, M. Protons in small spaces: Discrete simulations of vesicle acidification. PLoS Comput Biol. 2019; 15 (12):e1007539. PubMed PMID:31869334.
  12. Verdaguer, MP, Larsen, MB, Bruchez, MP, Watkins, SC, Sorkin, A. Analysis of EGF Receptor Endocytosis Using Fluorogen Activating Protein Tagged Receptor. Bio Protoc. 2019; 9 (24):e3463. PubMed PMID:33654955.
  13. Litvina, E, Adams, A, Barth, A, Bruchez, M, Carson, J, Chung, JE, Dupre, KB, Frank, LM, Gates, KM, Harris, KM, Joo, H, William Lichtman, J, Ramos, KM, Sejnowski, T, Trimmer, JS, White, S, Koroshetz, W. BRAIN Initiative: Cutting-Edge Tools and Resources for the Community. J Neurosci. 2019; 39 (42):8275-8284. PubMed PMID:31619497.
  14. Bruchez, M. Rev Med Suisse. 2019; 15 (665):1780. PubMed PMID:31580026.
  15. Kuljis, DA, Park, E, Telmer, CA, Lee, J, Ackerman, DS, Bruchez, MP, Barth, AL. Fluorescence-Based Quantitative Synapse Analysis for Cell Type-Specific Connectomics. eNeuro. ; 6 (5):. PubMed PMID:31548370.
  16. Whinn, KS, Kaur, G, Lewis, JS, Schauer, GD, Mueller, SH, Jergic, S, Maynard, H, Gan, ZY, Naganbabu, M, Bruchez, MP, O'Donnell, ME, Dixon, NE, van Oijen, AM, Ghodke, H. Nuclease dead Cas9 is a programmable roadblock for DNA replication. Sci Rep. 2019; 9 (1):13292. PubMed PMID:31527759.
  17. Qian, W, Kumar, N, Roginskaya, V, Fouquerel, E, Opresko, PL, Shiva, S, Watkins, SC, Kolodieznyi, D, Bruchez, MP, Van Houten, B. Chemoptogenetic damage to mitochondria causes rapid telomere dysfunction. Proc Natl Acad Sci U S A. 2019; 116 (37):18435-18444. PubMed PMID:31451640.
  18. Armitage, BA. Targeting G-Quadruplexes with PNA Oligomers. Methods Mol Biol. 2019; 2035 :333-345. PubMed PMID:31444760.
  19. Bulgari, D, Deitcher, DL, Schmidt, BF, Carpenter, MA, Szent-Gyorgyi, C, Bruchez, MP, Levitan, ES. Activity-evoked and spontaneous opening of synaptic fusion pores. Proc Natl Acad Sci U S A. 2019; 116 (34):17039-17044. PubMed PMID:31383765.
  20. Jang, S, Kumar, N, Beckwitt, EC, Kong, M, Fouquerel, E, Rapić-Otrin, V, Prasad, R, Watkins, SC, Khuu, C, Majumdar, C, David, SS, Wilson, SH, Bruchez, MP, Opresko, PL, Van Houten, B. Damage sensor role of UV-DDB during base excision repair. Nat Struct Mol Biol. 2019; 26 (8):695-703. PubMed PMID:31332353.
  21. Fouquerel, E, Barnes, RP, Uttam, S, Watkins, SC, Bruchez, MP, Opresko, PL. Targeted and Persistent 8-Oxoguanine Base Damage at Telomeres Promotes Telomere Loss and Crisis. Mol Cell. 2019; 75 (1):117-130.e6. PubMed PMID:31101499.
  22. 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.
  23. 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.
  24. Tan, X, Bruchez, MP, Armitage, BA. Efficient Cytoplasmic Delivery of Antisense Probes Assisted by Cyclized-Peptide-Mediated Photoinduced Endosomal Escape. Chembiochem. 2019; 20 (5):727-733. PubMed PMID:30452106.
  25. 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.
  26. Stensrud, KF, Zanotti, KJ, Waggoner, AS, Armitage, BA. Spectral Properties of Fluorogenic Thiophene-derived Triarylmethane Dyes. Photochem Photobiol. 2019; 95 (1):406-410. PubMed PMID:30339278.
  27. Fouz, MF, Dey, SK, Mukumoto, K, Matyjaszewski, K, Armitage, BA, Das, SR. Accessibility of Densely Localized DNA on Soft Polymer Nanoparticles. Langmuir. 2018; 34 (49):14731-14737. PubMed PMID:30148639.
  28. 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.
  29. 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.
  30. 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.
  31. 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.
  32. 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.
  33. Bruchez, MP. Through, rather than across. Nat Mater. 2018; 17 (2):112-113. PubMed PMID:31745265.
  34. Bruchez, MP. DNA nanostructures: Through, rather than across. Nat Mater. 2018; 17 (2):112-113. PubMed PMID:29358770.
  35. 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.
  36. Orenstein, A, Berlyoung, AS, Rastede, EE, Pham, HH, Fouquerel, E, Murphy, CT, Leibowitz, BJ, Yu, J, Srivastava, T, Armitage, BA, Opresko, PL. γPNA FRET Pair Miniprobes for Quantitative Fluorescent In Situ Hybridization to Telomeric DNA in Cells and Tissue. Molecules. 2017; 22 (12):. PubMed PMID:29207465.
  37. 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.
  38. 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.
  39. 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.
  40. Gallo, E, Jarvik, JW. Breaking the color barrier - a multi-selective antibody reporter offers innovative strategies of fluorescence detection. J Cell Sci. 2017; 130 (15):2644-2653. PubMed PMID:28615413.
  41. 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.
  42. Ackerman, DS, Vasilev, KV, Schmidt, BF, Cohen, LB, Jarvik, JW. Tethered Fluorogen Assay to Visualize Membrane Apposition in Living Cells. Bioconjug Chem. 2017; 28 (5):1356-1362. PubMed PMID:28414915.
  43. Snyder, JC, Rochelle, LK, Ray, C, Pack, TF, Bock, CB, Lubkov, V, Lyerly, HK, Waggoner, AS, Barak, LS, Caron, MG. Inhibiting clathrin-mediated endocytosis of the leucine-rich G protein-coupled receptor-5 diminishes cell fitness. J Biol Chem. 2017; 292 (17):7208-7222. PubMed PMID:28275053.
  44. 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.
  45. Fouz, MF, Mukumoto, K, Averick, S, Molinar, O, McCartney, BM, Matyjaszewski, K, Armitage, BA, Das, SR. Bright Fluorescent Nanotags from Bottlebrush Polymers with DNA-Tipped Bristles. ACS Cent Sci. 2015; 1 (8):431-8. PubMed PMID:27163005.
  46. 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.
  47. Vasilev, KV, Gallo, E, Shank, N, Jarvik, JW. Novel Biosensor of Membrane Protein Proximity Based on Fluorogen Activated Proteins. Comb Chem High Throughput Screen. 2016; 19 (5):392-9. PubMed PMID:27055753.
  48. Liu, W, Saunders, MJ, Bagia, C, Freeman, EC, Fan, Y, Gawalt, ES, Waggoner, AS, Meng, WS. Local retention of antibodies in vivo with an injectable film embedded with a fluorogen-activating protein. J Control Release. 2016; 230 :1-12. PubMed PMID:27038493.
  49. 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.
  50. Kormuth, KA, Woolford, JL Jr, Armitage, BA. Homologous PNA Hybridization to Noncanonical DNA G-Quadruplexes. Biochemistry. 2016; 55 (12):1749-57. PubMed PMID:26950608.
  51. Dutta, S, Armitage, BA, Lyubchenko, YL. Probing of miniPEGγ-PNA-DNA Hybrid Duplex Stability with AFM Force Spectroscopy. Biochemistry. 2016; 55 (10):1523-8. PubMed PMID:26898903.
  52. 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.
  53. Snyder, JC, Pack, TF, Rochelle, LK, Chakraborty, SK, Zhang, M, Eaton, AW, Bai, Y, Ernst, LA, Barak, LS, Waggoner, AS, Caron, MG. A rapid and affordable screening platform for membrane protein trafficking. BMC Biol. 2015; 13 :107. PubMed PMID:26678094.
  54. Wu, Y, Stauffer, SR, Stanfield, RL, Tapia, PH, Ursu, O, Fisher, GW, Szent-Gyorgyi, C, Evangelisti, A, Waller, A, Strouse, JJ, Carter, MB, Bologa, C, Gouveia, K, Poslusney, M, Waggoner, AS, Lindsley, CW, Jarvik, JW, Sklar, LA. Discovery of Small-Molecule Nonfluorescent Inhibitors of Fluorogen-Fluorogen Activating Protein Binding Pair. J Biomol Screen. 2016; 21 (1):74-87. PubMed PMID:26442911.
  55. 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.
  56. 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.
  57. 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.
  58. 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.
  59. 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.
  60. Rastede, EE, Tanha, M, Yaron, D, Watkins, SC, Waggoner, AS, Armitage, BA. Spectral fine tuning of cyanine dyes: electron donor-acceptor substituted analogues of thiazole orange. Photochem Photobiol Sci. 2015; 14 (9):1703-12. PubMed PMID:26171668.
  61. Bruchez, MP. Dark dyes-bright complexes: fluorogenic protein labeling. Curr Opin Chem Biol. 2015; 27 :18-23. PubMed PMID:26056741.
  62. Pope, WH, Bowman, CA, Russell, DA, Jacobs-Sera, D, Asai, DJ, Cresawn, SG, Jacobs, WR, Hendrix, RW, Lawrence, JG, Hatfull, GF, Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science, Phage Hunters Integrating Research and Education, Mycobacterial Genetics Course. Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity. Elife. 2015; 4 :e06416. PubMed PMID:25919952.
  63. Gallo, E, Snyder, AC, Jarvik, JW. Engineering tandem single-chain Fv as cell surface reporters with enhanced properties of fluorescence detection. Protein Eng Des Sel. 2015; 28 (10):327-37. PubMed PMID:25843939.
  64. Yan, Q, Bruchez, MP. Advances in chemical labeling of proteins in living cells. Cell Tissue Res. 2015; 360 (1):179-94. PubMed PMID:25743694.
  65. Pham, HH, Szent-Gyorgyi, C, Brotherton, WL, Schmidt, BF, Zanotti, KJ, Waggoner, AS, Armitage, BA. Bichromophoric dyes for wavelength shifting of dye-protein fluoromodules. Org Biomol Chem. 2015; 13 (12):3699-710. PubMed PMID:25679477.
  66. 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.
  67. 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.
  68. 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.
  69. 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.
  70. 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.
  71. 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.
  72. 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.
  73. Tanha, M, Chakraborty, SK, Gabris, B, Waggoner, AS, Salama, G, Yaron, D. Computational and experimental characterization of a fluorescent dye for detection of potassium ion concentration. J Phys Chem A. 2014; 118 (42):9837-43. PubMed PMID:25216181.
  74. Pham, HH, Murphy, CT, Sureshkumar, G, Ly, DH, Opresko, PL, Armitage, BA. Cooperative hybridization of γPNA miniprobes to a repeating sequence motif and application to telomere analysis. Org Biomol Chem. 2014; 12 (37):7345-7354. PubMed PMID:25115693.
  75. 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.
  76. Murphy, CT, Gupta, A, Armitage, BA, Opresko, PL. Hybridization of G-quadruplex-forming peptide nucleic acids to guanine-rich DNA templates inhibits DNA polymerase η extension. Biochemistry. 2014; 53 (32):5315-22. PubMed PMID:25068499.
  77. Cheatle Jarvela, AM, Brubaker, L, Vedenko, A, Gupta, A, Armitage, BA, Bulyk, ML, Hinman, VF. Modular evolution of DNA-binding preference of a Tbrain transcription factor provides a mechanism for modifying gene regulatory networks. Mol Biol Evol. 2014; 31 (10):2672-88. PubMed PMID:25016582.
  78. Gallo, E, Wienbar, S, Snyder, AC, Vasilev, KV, Armitage, BA, Jarvik, JW. A single-chain-variable-fragment fluorescence biosensor activates fluorogens from dissimilar chemical families. Protein Pept Lett. 2014; 21 (12):1289-94. PubMed PMID:24939660.
  79. 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.
  80. Fisher, GW, Fuhrman, MH, Adler, SA, Szent-Gyorgyi, C, Waggoner, AS, Jarvik, JW. Self-Checking Cell-Based Assays for GPCR Desensitization and Resensitization. J Biomol Screen. 2014; 19 (8):1220-6. PubMed PMID:24820110.
  81. Wu, Y, Tapia, PH, Jarvik, J, Waggoner, AS, Sklar, LA. Real-time detection of protein trafficking with high-throughput flow cytometry (HTFC) and fluorogen-activating protein (FAP) base biosensor. Curr Protoc Cytom. 2014; 67 :9.43.1-9.43.11. PubMed PMID:24510772.
  82. 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.
  83. Armitage, BA. Analysis of PNA hybridization by surface plasmon resonance. Methods Mol Biol. 2014; 1050 :159-65. PubMed PMID:24297358.
  84. Armitage, BA. Formation and characterization of PNA-containing heteroquadruplexes. Methods Mol Biol. 2014; 1050 :73-82. PubMed PMID:24297351.
  85. 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.
  86. Patrick, MJ, Janjic, JM, Teng, H, O'Hear, MR, Brown, CW, Stokum, JA, Schmidt, BF, Ahrens, ET, Waggoner, AS. Intracellular pH measurements using perfluorocarbon nanoemulsions. J Am Chem Soc. 2013; 135 (49):18445-57. PubMed PMID:24266634.
  87. 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.
  88. 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.
  89. 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.
  90. Gupta, A, Lee, LL, Roy, S, Tanious, FA, Wilson, WD, Ly, DH, Armitage, BA. Strand invasion of DNA quadruplexes by PNA: comparison of homologous and complementary hybridization. Chembiochem. 2013; 14 (12):1476-84. PubMed PMID:23868291.
  91. 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.
  92. Coelho, LP, Kangas, JD, Naik, AW, Osuna-Highley, E, Glory-Afshar, E, Fuhrman, M, Simha, R, Berget, PB, Jarvik, JW, Murphy, RF. Determining the subcellular location of new proteins from microscope images using local features. Bioinformatics. 2013; 29 (18):2343-9. PubMed PMID:23836142.
  93. Goldman, JM, Zhang, LA, Manna, A, Armitage, BA, Ly, DH, Schneider, JW. High affinity γPNA sandwich hybridization assay for rapid detection of short nucleic acid targets with single mismatch discrimination. Biomacromolecules. 2013; 14 (7):2253-61. PubMed PMID:23777445.
  94. Saunders, MJ, Liu, W, Szent-Gyorgyi, C, Wen, Y, Drennen, Z, Waggoner, AS, Meng, WS. Engineering fluorogen activating proteins into self-assembling materials. Bioconjug Chem. 2013; 24 (5):803-10. PubMed PMID:23573960.
  95. Wu, Y, Tapia, PH, Fisher, GW, Waggoner, AS, Jarvik, J, Sklar, LA. High-throughput flow cytometry compatible biosensor based on fluorogen activating protein technology. Cytometry A. 2013; 83 (2):220-6. PubMed PMID:23303704.
  96. 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.
  97. Shank, NI, Pham, HH, Waggoner, AS, Armitage, BA. Twisted cyanines: a non-planar fluorogenic dye with superior photostability and its use in a protein-based fluoromodule. J Am Chem Soc. 2013; 135 (1):242-51. PubMed PMID:23252842.
  98. Thomas, SM, Sahu, B, Rapireddy, S, Bahal, R, Wheeler, SE, Procopio, EM, Kim, J, Joyce, SC, Contrucci, S, Wang, Y, Chiosea, SI, Lathrop, KL, Watkins, S, Grandis, JR, Armitage, BA, Ly, DH. Antitumor effects of EGFR antisense guanidine-based peptide nucleic acids in cancer models. ACS Chem Biol. 2013; 8 (2):345-52. PubMed PMID:23113581.
  99. 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.
  100. Wu, Y, Tapia, PH, Fisher, GW, Simons, PC, Strouse, JJ, Foutz, T, Waggoner, AS, Jarvik, J, Sklar, LA. Discovery of regulators of receptor internalization with high-throughput flow cytometry. Mol Pharmacol. 2012; 82 (4):645-57. PubMed PMID:22767611.
  101. Cunningham, WA, Van Bavel, JJ, Arbuckle, NL, Packer, DJ, Waggoner, AS. Rapid social perception is flexible: approach and avoidance motivational states shape P100 responses to other-race faces. Front Hum Neurosci. 2012; 6 :140. PubMed PMID:22661937.
  102. 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.
  103. 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.
  104. 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.
  105. 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.
  106. Holleran, JP, Glover, ML, Peters, KW, Bertrand, CA, Watkins, SC, Jarvik, JW, Frizzell, RA. Pharmacological rescue of the mutant cystic fibrosis transmembrane conductance regulator (CFTR) detected by use of a novel fluorescence platform. Mol Med. 2012; 18 :685-96. PubMed PMID:22396015.
  107. Senutovitch, N, Stanfield, RL, Bhattacharyya, S, Rule, GS, Wilson, IA, Armitage, BA, Waggoner, AS, Berget, PB. A variable light domain fluorogen activating protein homodimerizes to activate dimethylindole red. Biochemistry. 2012; 51 (12):2471-85. PubMed PMID:22390683.
  108. Oprea, TI, Bauman, JE, Bologa, CG, Buranda, T, Chigaev, A, Edwards, BS, Jarvik, JW, Gresham, HD, Haynes, MK, Hjelle, B, Hromas, R, Hudson, L, Mackenzie, DA, Muller, CY, Reed, JC, Simons, PC, Smagley, Y, Strouse, J, Surviladze, Z, Thompson, T, Ursu, O, Waller, A, Wandinger-Ness, A, Winter, SS, Wu, Y, Young, SM, Larson, RS, Willman, C, Sklar, LA. Drug Repurposing from an Academic Perspective. Drug Discov Today Ther Strateg. 2011; 8 (3-4):61-69. PubMed PMID:22368688.
  109. 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.
  110. Armitage, BA. Imaging of RNA in live cells. Curr Opin Chem Biol. 2011; 15 (6):806-12. PubMed PMID:22055496.
  111. Bruchez, MP. Quantum dots find their stride in single molecule tracking. Curr Opin Chem Biol. 2011; 15 (6):775-80. PubMed PMID:22055494.
  112. 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.
  113. Mohammed, HS, Delos Santos, JO, Armitage, BA. Noncovalent binding and fluorogenic response of cyanine dyes to DNA homoquadruplex and PNA-DNA heteroquadruplex structures. Artif DNA PNA XNA. 2011; 2 (2):43-49. PubMed PMID:21912726.
  114. Stadler, AL, Delos Santos, JO, Stensrud, ES, Dembska, A, Silva, GL, Liu, S, Shank, NI, Kunttas-Tatli, E, Sobers, CJ, Gramlich, PM, Carell, T, Peteanu, LA, McCartney, BM, Armitage, BA. Fluorescent DNA nanotags featuring covalently attached intercalating dyes: synthesis, antibody conjugation, and intracellular imaging. Bioconjug Chem. 2011; 22 (8):1491-502. PubMed PMID:21755981.
  115. Roy, S, Zanotti, KJ, Murphy, CT, Tanious, FA, Wilson, WD, Ly, DH, Armitage, BA. Kinetic discrimination in recognition of DNA quadruplex targets by guanine-rich heteroquadruplex-forming PNA probes. Chem Commun (Camb). 2011; 47 (30):8524-6. PubMed PMID:21717030.
  116. Sahu, B, Sacui, I, Rapireddy, S, Zanotti, KJ, Bahal, R, Armitage, BA, Ly, DH. Synthesis and characterization of conformationally preorganized, (R)-diethylene glycol-containing γ-peptide nucleic acids with superior hybridization properties and water solubility. J Org Chem. 2011; 76 (14):5614-27. PubMed PMID:21619025.
  117. 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.
  118. Chowdhury, S, Wu, Z, Jaquins-Gerstl, A, Liu, S, Dembska, A, Armitage, BA, Jin, R, Peteanu, LA. Wavelength Dependence of the Fluorescence Quenching Efficiency of Nearby Dyes by Gold Nanoclusters and Nanoparticles: The Roles of Spectral Overlap and Particle Size. J Phys Chem C Nanomater Interfaces. 2011; 115 (41):20105-20112. PubMed PMID:22924090.
  119. Zanotti, KJ, Silva, GL, Creeger, Y, Robertson, KL, Waggoner, AS, Berget, PB, Armitage, BA. Blue fluorescent dye-protein complexes based on fluorogenic cyanine dyes and single chain antibody fragments. Org Biomol Chem. 2011; 9 (4):1012-20. PubMed PMID:21180706.
  120. Bruchez, M. [From loss of autonomy to dysautonomia: anticholinergic drugs in geriatrics]. Rev Med Suisse. 2010; 6 (270):2146-9. PubMed PMID:21174838.
  121. Stadler, AL, Renikuntla, BR, Yaron, D, Fang, AS, Armitage, BA. Substituent effects on the assembly of helical cyanine dye aggregates in the minor groove of a DNA template. Langmuir. 2011; 27 (4):1472-9. PubMed PMID:21174432.
  122. Damerla, RR, Knickelbein, KE, Kepchia, D, Jackson, A, Armitage, BA, Eckert, KA, Opresko, PL. Telomeric repeat mutagenicity in human somatic cells is modulated by repeat orientation and G-quadruplex stability. DNA Repair (Amst). 2010; 9 (11):1119-29. PubMed PMID:20800555.
  123. 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.
  124. Holleran, J, Brown, D, Fuhrman, MH, Adler, SA, Fisher, GW, Jarvik, JW. Fluorogen-activating proteins as biosensors of cell-surface proteins in living cells. Cytometry A. 2010; 77 (8):776-82. PubMed PMID:20653017.
  125. 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.
  126. Cunningham, WA, Johnsen, IR, Waggoner, AS. Orbitofrontal cortex provides cross-modal valuation of self-generated stimuli. Soc Cogn Affect Neurosci. 2011; 6 (3):286-93. PubMed PMID:20453039.
  127. Buck, TE, Rao, A, Coelho, LP, Fuhrman, MH, Jarvik, JW, Berget, PB, Murphy, RF. Cell cycle dependence of protein subcellular location inferred from static, asynchronous images. Annu Int Conf IEEE Eng Med Biol Soc. 2009; 2009 :1016-9. PubMed PMID:19963740.
  128. Lusvarghi, S, Murphy, CT, Roy, S, Tanious, FA, Sacui, I, Wilson, WD, Ly, DH, Armitage, BA. Loop and backbone modifications of peptide nucleic acid improve g-quadruplex binding selectivity. J Am Chem Soc. 2009; 131 (51):18415-24. PubMed PMID:19947597.
  129. Shank, NI, Zanotti, KJ, Lanni, F, Berget, PB, Armitage, BA. Enhanced photostability of genetically encodable fluoromodules based on fluorogenic cyanine dyes and a promiscuous protein partner. J Am Chem Soc. 2009; 131 (36):12960-9. PubMed PMID:19737016.
  130. 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.
  131. Lusvarghi, S, Kim, JM, Creeger, Y, Armitage, BA. Refined multivalent display of bacterial spore-binding peptides. Org Biomol Chem. 2009; 7 (9):1815-20. PubMed PMID:19590776.
  132. Mittal, R, Bruchez, MP. Calibration of Flow Cytometry for Quantitative Quantum Dot Measurements. Curr Protoc Cytom. 2009; Chapter 6 :Unit6.26. PubMed PMID:20953266.
  133. 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.
  134. Herrera, DA, Anavian, J, Tarkin, IS, Armitage, BA, Schroder, LK, Cole, PA. Delayed operative management of fractures of the scapula. J Bone Joint Surg Br. 2009; 91 (5):619-26. PubMed PMID:19407296.
  135. Ozhalici-Unal, H, Armitage, BA. Fluorescent DNA nanotags based on a self-assembled DNA tetrahedron. ACS Nano. 2009; 3 (2):425-33. PubMed PMID:19236081.
  136. 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.
  137. Ediz, V, Lee, JL, Armitage, BA, Yaron, D. Molecular engineering of torsional potentials in fluorogenic dyes via electronic substituent effects. J Phys Chem A. 2008; 112 (40):9692-701. PubMed PMID:18785691.
  138. Waggoner, AS, Wachman, ES, Farkas, DL. Optical filtering systems for wavelength selection in light microscopy. Curr Protoc Cytom. 2001; Chapter 2 :Unit 2.4. PubMed PMID:18770698.
  139. Ozhalici-Unal, H, Pow, CL, Marks, SA, Jesper, LD, Silva, GL, Shank, NI, Jones, EW, Burnette, JM 3rd, Berget, PB, Armitage, BA. A rainbow of fluoromodules: a promiscuous scFv protein binds to and activates a diverse set of fluorogenic cyanine dyes. J Am Chem Soc. 2008; 130 (38):12620-1. PubMed PMID:18761447.
  140. 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.
  141. Constantin, TP, Silva, GL, Robertson, KL, Hamilton, TP, Fague, K, Waggoner, AS, Armitage, BA. Synthesis of new fluorogenic cyanine dyes and incorporation into RNA fluoromodules. Org Lett. 2008; 10 (8):1561-4. PubMed PMID:18338898.
  142. Armitage, BA, Berget, PB. Chemistry. An enlightening structure-function relationship. Science. 2008; 319 (5867):1195-6. PubMed PMID:18309067.
  143. Szent-Gyorgyi, C, Schmidt, BF, Schmidt, BA, 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.
  144. Rapireddy, S, He, G, Roy, S, Armitage, BA, Ly, DH. Strand invasion of mixed-sequence B-DNA by acridine-linked, gamma-peptide nucleic acid (gamma-PNA). J Am Chem Soc. 2007; 129 (50):15596-600. PubMed PMID:18027941.
  145. Patrick, MJ, Ernst, LA, Waggoner, AS, Thai, D, Tai, D, Salama, G. Enhanced aqueous solubility of long wavelength voltage-sensitive dyes by covalent attachment of polyethylene glycol. Org Biomol Chem. 2007; 5 (20):3347-53. PubMed PMID:17912389.
  146. Roy, S, Tanious, FA, Wilson, WD, Ly, DH, Armitage, BA. High-affinity homologous peptide nucleic acid probes for targeting a quadruplex-forming sequence from a MYC promoter element. Biochemistry. 2007; 46 (37):10433-43. PubMed PMID:17718513.
  147. Chakraborty, SK, Fitzpatrick, JA, Phillippi, JA, Andreko, S, Waggoner, AS, Bruchez, MP, Ballou, B. Cholera toxin B conjugated quantum dots for live cell labeling. Nano Lett. 2007; 7 (9):2618-26. PubMed PMID:17663586.
  148. Smith, JD, Chen, A, Ernst, LA, Waggoner, AS, Campbell, PG. Immobilization of aprotinin to fibrinogen as a novel method for controlling degradation of fibrin gels. Bioconjug Chem. ; 18 (3):695-701. PubMed PMID:17432824.
  149. Lanni, F, Pane, DA, Weinstein, SJ, Waggoner, AS. Compact flashlamp-based fluorescence imager for use under ambient-light conditions. Rev Sci Instrum. 2007; 78 (3):033702. PubMed PMID:17411186.
  150. Silva, GL, Ediz, V, Yaron, D, Armitage, BA. Experimental and computational investigation of unsymmetrical cyanine dyes: understanding torsionally responsive fluorogenic dyes. J Am Chem Soc. 2007; 129 (17):5710-8. PubMed PMID:17411048.
  151. Armitage, BA. The rule of four. Nat Chem Biol. 2007; 3 (4):203-4. PubMed PMID:17372603.
  152. Jackson, H, Muhammad, O, Daneshvar, H, Nelms, J, Popescu, A, Vogelbaum, MA, Bruchez, M, Toms, SA. Quantum dots are phagocytized by macrophages and colocalize with experimental gliomas. Neurosurgery. 2007; 60 (3):524-9; discussion 529-30. PubMed PMID:17327798.
  153. Ballou, B, Ernst, LA, Andreko, S, Harper, T, Fitzpatrick, JA, Waggoner, AS, Bruchez, MP. Sentinel lymph node imaging using quantum dots in mouse tumor models. Bioconjug Chem. ; 18 (2):389-96. PubMed PMID:17263568.
  154. Benvin, AL, Creeger, Y, Fisher, GW, Ballou, B, Waggoner, AS, Armitage, BA. Fluorescent DNA nanotags: supramolecular fluorescent labels based on intercalating dye arrays assembled on nanostructured DNA templates. J Am Chem Soc. 2007; 129 (7):2025-34. PubMed PMID:17256855.
  155. Smith, JD, Melhem, ME, Magge, KT, Waggoner, AS, Campbell, PG. Improved growth factor directed vascularization into fibrin constructs through inclusion of additional extracellular molecules. Microvasc Res. 2007; 73 (2):84-94. PubMed PMID:17223139.
  156. Smith, JD, Fisher, GW, Waggoner, AS, Campbell, PG. The use of quantum dots for analysis of chick CAM vasculature. Microvasc Res. 2007; 73 (2):75-83. PubMed PMID:17070560.
  157. Giuliano, KA, Taylor, DL, Waggoner, AS. Reagents to measure and manipulate cell functions. Methods Mol Biol. 2007; 356 :141-63. PubMed PMID:16988401.
  158. Chattopadhyay, PK, Price, DA, Harper, TF, Betts, MR, Yu, J, Gostick, E, Perfetto, SP, Goepfert, P, Koup, RA, De Rosa, SC, Bruchez, MP, Roederer, M. Quantum dot semiconductor nanocrystals for immunophenotyping by polychromatic flow cytometry. Nat Med. 2006; 12 (8):972-7. PubMed PMID:16862156.
  159. Robertson, KL, Yu, L, Armitage, BA, Lopez, AJ, Peteanu, LA. Fluorescent PNA probes as hybridization labels for biological RNA. Biochemistry. 2006; 45 (19):6066-74. PubMed PMID:16681379.
  160. Salama, G, Choi, BR, Azour, G, Lavasani, M, Tumbev, V, Salzberg, BM, Patrick, MJ, Ernst, LA, Waggoner, AS. Properties of new, long-wavelength, voltage-sensitive dyes in the heart. J Membr Biol. 2005; 208 (2):125-40. PubMed PMID:16645742.
  161. Marin, VL, Armitage, BA. Hybridization of complementary and homologous peptide nucleic acid oligomers to a guanine quadruplex-forming RNA. Biochemistry. 2006; 45 (6):1745-54. PubMed PMID:16460021.
  162. Armitage, BA. Antigene leaps forward through an open door. Nat Chem Biol. 2005; 1 (4):185-6. PubMed PMID:16408028.
  163. Hannah, KC, Gil, RR, Armitage, BA. 1H NMR and optical spectroscopic investigation of the sequence-dependent dimerization of a symmetrical cyanine dye in the DNA minor groove. Biochemistry. 2005; 44 (48):15924-9. PubMed PMID:16313195.
  164. Fischer, AJ, Rockwell, NC, Jang, AY, Ernst, LA, Waggoner, AS, Duan, Y, Lei, H, Lagarias, JC. Multiple roles of a conserved GAF domain tyrosine residue in cyanobacterial and plant phytochromes. Biochemistry. 2005; 44 (46):15203-15. PubMed PMID:16285723.
  165. Bruchez, MP. Turning all the lights on: quantum dots in cellular assays. Curr Opin Chem Biol. 2005; 9 (5):533-7. PubMed PMID:16125995.
  166. Marin, VL, Armitage, BA. RNA guanine quadruplex invasion by complementary and homologous PNA probes. J Am Chem Soc. 2005; 127 (22):8032-3. PubMed PMID:15926825.
  167. Renikuntla, BR, Armitage, BA. Role reversal in a supramolecular assembly: a chiral cyanine dye controls the helicity of a peptide-nucleic acid duplex. Langmuir. 2005; 21 (12):5362-6. PubMed PMID:15924462.
  168. Ballou, B, Ernst, LA, Waggoner, AS. Fluorescence imaging of tumors in vivo. Curr Med Chem. 2005; 12 (7):795-805. PubMed PMID:15853712.
  169. Datta, B, Bier, ME, Roy, S, Armitage, BA. Quadruplex formation by a guanine-rich PNA oligomer. J Am Chem Soc. 2005; 127 (12):4199-207. PubMed PMID:15783201.
  170. Dilek, I, Madrid, M, Singh, R, Urrea, CP, Armitage, BA. Effect of PNA backbone modifications on cyanine dye binding to PNA-DNA duplexes investigated by optical spectroscopy and molecular dynamics simulations. J Am Chem Soc. 2005; 127 (10):3339-45. PubMed PMID:15755150.
  171. Hannah, KC, Armitage, BA. DNA-templated assembly of helical cyanine dye aggregates: a supramolecular chain polymerization. Acc Chem Res. 2004; 37 (11):845-53. PubMed PMID:15612674.
  172. Wu, X, Bruchez, MP. Labeling cellular targets with semiconductor quantum dot conjugates. Methods Cell Biol. 2004; 75 :171-83. PubMed PMID:15603426.
  173. Zeng, X, Witchel, SF, Dobrowolski, SF, Moulder, PV, Jarvik, JW, Telmer, CA. Detection and assignment of CYP21 mutations using peptide mass signature genotyping. Mol Genet Metab. 2004; 82 (1):38-47. PubMed PMID:15110320.
  174. Marin, V, Hansen, HF, Koch, T, Armitage, BA. Effect of LNA modifications on small molecule binding to nucleic acids. J Biomol Struct Dyn. 2004; 21 (6):841-50. PubMed PMID:15107006.
  175. Mattheakis, LC, Dias, JM, Choi, YJ, Gong, J, Bruchez, MP, Liu, J, Wang, E. Optical coding of mammalian cells using semiconductor quantum dots. Anal Biochem. 2004; 327 (2):200-8. PubMed PMID:15051536.
  176. Renikuntla, BR, Rose, HC, Eldo, J, Waggoner, AS, Armitage, BA. Improved photostability and fluorescence properties through polyfluorination of a cyanine dye. Org Lett. 2004; 6 (6):909-12. PubMed PMID:15012062.
  177. Marin, VL, Roy, S, Armitage, BA. Recent advances in the development of peptide nucleic acid as a gene-targeted drug. Expert Opin Biol Ther. 2004; 4 (3):337-48. PubMed PMID:15006728.
  178. Ballou, B, Lagerholm, BC, Ernst, LA, Bruchez, MP, Waggoner, AS. Noninvasive imaging of quantum dots in mice. Bioconjug Chem. ; 15 (1):79-86. PubMed PMID:14733586.
  179. Cao, R, Gu, Z, Patterson, GD, Armitage, BA. A recoverable enzymatic microgel based on biomolecular recognition. J Am Chem Soc. 2004; 126 (3):726-7. PubMed PMID:14733541.
  180. Cao, R, Gu, Z, Hsu, L, Patterson, GD, Armitage, BA. Synthesis and characterization of thermoreversible biopolymer microgels based on hydrogen bonded nucleobase pairing. J Am Chem Soc. 2003; 125 (34):10250-6. PubMed PMID:12926948.
  181. Telmer, CA, Retchless, AC, Kinsey, AD, Conley, Y, Rigatti, B, Gorin, MB, Jarvik, JW, Retchless, AR. Detection and assignment of mutations and minihaplotypes in human DNA using peptide mass signature genotyping (PMSG): application to the human RDS/peripherin gene. Genome Res. 2003; 13 (8):1944-51. PubMed PMID:12902384.
  182. Malehorn, DE, Telmer, CA, McEwen, SB, An, J, Kinsey, AD, Retchless, AC, Mason, C, Vieta, WM, Jarvik, JW. Detection of cystic fibrosis mutations by peptide mass signature genotyping. Clin Chem. 2003; 49 (8):1318-30. PubMed PMID:12881448.
  183. Telmer, CA, An, J, Malehorn, DE, Zeng, X, Gollin, SM, Ishwad, CS, Jarvik, JW. Detection and assignment of TP53 mutations in tumor DNA using peptide mass signature genotyping. Hum Mutat. 2003; 22 (2):158-65. PubMed PMID:12872257.
  184. Larson, DR, Zipfel, WR, Williams, RM, Clark, SW, Bruchez, MP, Wise, FW, Webb, WW. Water-soluble quantum dots for multiphoton fluorescence imaging in vivo. Science. 2003; 300 (5624):1434-6. PubMed PMID:12775841.
  185. Datta, B, Schmitt, C, Armitage, BA. Formation of a PNA2-DNA2 hybrid quadruplex. J Am Chem Soc. 2003; 125 (14):4111-8. PubMed PMID:12670232.
  186. Armitage, BA. The impact of nucleic acid secondary structure on PNA hybridization. Drug Discov Today. 2003; 8 (5):222-8. PubMed PMID:12634014.
  187. Watson, A, Wu, X, Bruchez, M. Lighting up cells with quantum dots. Biotechniques. 2003; 34 (2):296-300, 302-3. PubMed PMID:12613252.
  188. Wu, X, Liu, H, Liu, J, Haley, KN, Treadway, JA, Larson, JP, Ge, N, Peale, F, Bruchez, MP. Immunofluorescent labeling of cancer marker Her2 and other cellular targets with semiconductor quantum dots. Nat Biotechnol. 2003; 21 (1):41-6. PubMed PMID:12459735.
  189. Jarvik, JW, Fisher, GW, Shi, C, Hennen, L, Hauser, C, Adler, S, Berget, PB. In vivo functional proteomics: mammalian genome annotation using CD-tagging. Biotechniques. 2002; 33 (4):852-4, 856, 858-60 passim. PubMed PMID:12398194.
  190. Wang, M, Armitage, BA. Colorimetric detection of PNA-DNA hybridization using cyanine dyes. Methods Mol Biol. 2002; 208 :131-42. PubMed PMID:12229285.
  191. Telmer, CA, Berget, PB, Ballou, B, Murphy, RF, Jarvik, JW. Epitope tagging genomic DNA using a CD-tagging Tn10 minitransposon. Biotechniques. 2002; 32 (2):422-4, 426, 428-30. PubMed PMID:11848418.
  192. Kushon, SA, Jordan, JP, Seifert, JL, Nielsen, H, Nielsen, PE, Armitage, BA. Effect of secondary structure on the thermodynamics and kinetics of PNA hybridization to DNA hairpins. J Am Chem Soc. 2001; 123 (44):10805-13. PubMed PMID:11686681.
  193. Datta, B, Armitage, BA. Hybridization of PNA to structured DNA targets: quadruplex invasion and the overhang effect. J Am Chem Soc. 2001; 123 (39):9612-9. PubMed PMID:11572682.
  194. Cao, R, Venezia, CF, Armitage, BA. Investigation of DNA binding modes for a symmetrical cyanine dye trication: effect of DNA sequence and structure. J Biomol Struct Dyn. 2001; 18 (6):844-56. PubMed PMID:11444373.
  195. Michel, JP, Hoffmeyer, P, Klopfenstein, C, Bruchez, M, Grab, B, d'Epinay, CL. Prognosis of functional recovery 1 year after hip fracture: typical patient profiles through cluster analysis. J Gerontol A Biol Sci Med Sci. 2000; 55 (9):M508-15. PubMed PMID:10995048.
  196. Kriegstein, AR, Shungu, DC, Millar, WS, Armitage, BA, Brust, JC, Chillrud, S, Goldman, J, Lynch, T. Leukoencephalopathy and raised brain lactate from heroin vapor inhalation ("chasing the dragon"). Neurology. 1999; 53 (8):1765-73. PubMed PMID:10563626.
  197. Nelson, RW, Jarvik, JW, Taillon, BE, Tubbs, KA. BIA/MS of epitope-tagged peptides directly from E. coli lysate: multiplex detection and protein identification at low-femtomole to subfemtomole levels. Anal Chem. 1999; 71 (14):2858-65. PubMed PMID:10424172.
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  199. Armitage, BA, Siegelbaum, SA. Presynaptic induction and expression of homosynaptic depression at Aplysia sensorimotor neuron synapses. J Neurosci. 1998; 18 (21):8770-9. PubMed PMID:9786984.
  200. Bruchez, M Jr, Moronne, M, Gin, P, Weiss, S, Alivisatos, AP. Semiconductor nanocrystals as fluorescent biological labels. Science. 1998; 281 (5385):2013-6. PubMed PMID:9748157.
  201. Randolph, JB, Waggoner, AS. Stability, specificity and fluorescence brightness of multiply-labeled fluorescent DNA probes. Nucleic Acids Res. 1997; 25 (14):2923-9. PubMed PMID:9207044.
  202. Zhu, Z, Waggoner, AS. Molecular mechanism controlling the incorporation of fluorescent nucleotides into DNA by PCR. Cytometry. 1997; 28 (3):206-11. PubMed PMID:9222105.
  203. Kriegstein, AR, Armitage, BA, Kim, PY. Heroin inhalation and progressive spongiform leukoencephalopathy. N Engl J Med. 1997; 336 (8):589-90. PubMed PMID:9036319.
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