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Biosensors - Resources

Publications - last updated February, 2016

2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Conway DE, Breckenridge MT, Hinde E, Gratton E, Chen CS, Schwartz MA. Fluid Shear Stress on Endothelial Cells Modulates Mechanical Tension across VE-Cadherin and PECAM-1. Curr. Biol. 2013; 23:1024-30 Full Text | CMC Update Article.
  • Dagliyan O, Shirvanyants D, Karginov AV, Ding F, Fee L, Chandrasekaran SN, Freisinger CM, Smolen GA, Huttenlocher A, Hahn KM, Dokholyan NV. Rational design of a ligand-controlled protein conformational switch. Proc. Natl. Acad. Sci. U.S.A. 2013; PubMed | CMC Update Article.
  • Hinde E, Digman MA, Hahn KM, Gratton E. Millisecond spatiotemporal dynamics of FRET biosensors by the pair correlation function and the phasor approach to FLIM. Proc. Natl. Acad. Sci. U.S.A. 2013; 110:135-40 Full Text | CMC Update Article.
  • Macnevin CJ, Gremyachinskiy D, Hsu CW, Li L, Rougie M, Davis TT, Hahn KM. Environment-Sensing Merocyanine Dyes for Live Cell Imaging Applications. Bioconjug. Chem. 2013; PubMed | CMC Update Article.
  • Sainlos M, Iskenderian-Epps WS, Olivier NB, Choquet D, Imperiali B. Caged Mono- and Divalent Ligands for Light-Assisted Disruption of PDZ Domain-Mediated Interactions. J. Am. Chem. Soc. 2013; PubMed | CMC Update Article.
  • Zawistowski JS, Sabouri-Ghomi M, Danuser G, Hahn KM, Hodgson L. A RhoC Biosensor Reveals Differences in the Activation Kinetics of RhoA and RhoC in Migrating Cells. PLoS ONE 2013; 8:e79877 Full Text | CMC Update Article.

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  • Stains CI, Tedford NC, Walkup TC, Luković E, Goguen BN, Griffith LG, Lauffenburger DA, Imperiali B. Interrogating signaling nodes involved in cellular transformations using kinase activity probes. Chem. Biol. 2012; 19:210-7 Full Text | CMC Update Article.

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  • Goguen BN, Aemissegger A, Imperiali B. Sequential Activation and Deactivation of Protein Function Using Spectrally Differentiated Caged Phosphoamino Acids. J Am Chem Soc 2011; PubMed | CMC Update Article.
  • Goguen BN, Hoffman BD, Sellers JR, Schwartz MA, Imperiali B. Light-triggered Myosin activation for probing dynamic cellular processes. Angew. Chem. Int. Ed. Engl. 2011; 50:5667-70 PubMed | CMC Update Article.
  • Goguen BN, Imperiali B. Chemical Tools for Studying Directed Cell Migration. ACS Chem Biol 2011; PubMed.
  • Goguen BN, Loving GS, Imperiali B. Development of a fluorogenic sensor for activated Cdc42. Bioorg Med Chem Lett 2011; PubMed | CMC Update Article.
  • Gulyani A, Vitriol E, Allen R, Wu J, Gremyachinskiy D, Lewis S, Dewar B, Graves LM, Kay BK, Kuhlman B, Elston T, Hahn KM. A biosensor generated via high-throughput screening quantifies cell edge Src dynamics. Nat. Chem. Biol. 2011; 7:437-44 Full Text | CMC Update Article.
  • Hinde E, Digman MA, Welch C, Hahn KM, Gratton E. Biosensor Förster resonance energy transfer detection by the phasor approach to fluorescence lifetime imaging microscopy. Microsc Res Tech 2011; PubMed | CMC Update Article.
  • Karginov AV, Hahn KM. Allosteric Activation of Kinases: Design and Application of RapR Kinases. Curr Protoc Cell Biol 2011; Chapter 14:Unit14.3 PubMed.
  • Stains CI, Luković E, Imperiali B. A p38α-selective chemosensor for use in unfractionated cell lysates. ACS Chem. Biol. 2011; 6:101-5 Full Text | CMC Update Article.
  • Welch CM, Elliott H, Danuser G, Hahn KM. Imaging the coordination of multiple signalling activities in living cells. Nat. Rev. Mol. Cell Biol. 2011; 12:749-56 PubMed.
  • Wu YI, Wang X, He L, Montell D, Hahn KM. Spatiotemporal Control of Small GTPases with Light Using the LOV Domain. Meth. Enzymol. 2011; 497:393-407 PubMed | CMC Update Article.

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  • Grashoff C, Hoffman BD, Brenner MD, Zhou R, Parsons M, Yang MT, McLean MA, Sligar SG, Chen CS, Ha T, Schwartz MA. Measuring mechanical tension across vinculin reveals regulation of focal adhesion dynamics. Nature 2010; 466:263-6 Full Text | CMC Update Article.
  • Hodgson L, Shen F, Hahn K. Biosensors for characterizing the dynamics of rho family GTPases in living cells. Curr Protoc Cell Biol 2010; Chapter 14:Unit 14.11.1-26 Full Text | CMC Update Article.
  • Karginov AV, Ding F, Kota P, Dokholyan NV, Hahn KM. Engineered allosteric activation of kinases in living cells. Nat. Biotechnol. 2010; 28:743-7 Full Text | CMC Update Article.
  • Karginov AV, Zou Y, Shirvanyants D, Kota P, Dokholyan NV, Young DD, Hahn KM, Deiters A. Light Regulation of Protein Dimerization and Kinase Activity in Living Cells Using Photocaged Rapamycin and Engineered FKBP. J Am Chem Soc 2010; PubMed | CMC Update Article.
  • Koivusalo M, Welch C, Hayashi H, Scott CC, Kim M, Alexander T, Touret N, Hahn KM, Grinstein S. Amiloride inhibits macropinocytosis by lowering submembranous pH and preventing Rac1 and Cdc42 signaling. J. Cell Biol. 2010; 188:547-63 Full Text.
  • Loving GS, Sainlos M, Imperiali B. Monitoring protein interactions and dynamics with solvatochromic fluorophores. Trends Biotechnol. 2010; 28:73-83 Full Text.
  • Parsons JT, Horwitz AR, Schwartz MA. Cell adhesion: integrating cytoskeletal dynamics and cellular tension. Nat. Rev. Mol. Cell Biol. 2010; 11:633-43 Full Text.
  • Wang X, He L, Wu YI, Hahn KM, Montell DJ. Light-mediated activation reveals a key role for Rac in collective guidance of cell movement in vivo. Nat. Cell Biol. 2010; 12:591-7 Full Text.
  • Ye F, Hu G, Taylor D, Ratnikov B, Bobkov AA, McLean MA, Sligar SG, Taylor KA, Ginsberg MH. Recreation of the terminal events in physiological integrin activation. J. Cell Biol. 2010; 188:157-73 Full Text | CMC Update Article.
  • Yoo SK, Deng Q, Cavnar PJ, Wu YI, Hahn KM, Huttenlocher A. Differential regulation of protrusion and polarity by PI3K during neutrophil motility in live zebrafish. Dev. Cell 2010; 18:226-36 Full Text | CMC Update Article.

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  • González-Vera JA, Luković E, Imperiali B. A rapid method for generation of selective Sox-based chemosensors of Ser/Thr kinases using combinatorial peptide libraries. Bioorg. Med. Chem. Lett. 2009; 19:1258-60 Full Text | CMC Update Article.
  • González-Vera JA, Luković E, Imperiali B. Synthesis of red-shifted 8-hydroxyquinoline derivatives using click chemistry and their incorporation into phosphorylation chemosensors. J. Org. Chem. 2009; 74:7309-14 Full Text.
  • Loving G, Imperiali B. Thiol-reactive derivatives of the solvatochromic 4-N,N-dimethylamino-1,8-naphthalimide fluorophore: a highly sensitive toolset for the detection of biomolecular interactions. Bioconjug. Chem. 2009; 20:2133-41 Full Text.
  • Luković E, Vogel Taylor E, Imperiali B. Monitoring protein kinases in cellular media with highly selective chimeric reporters. Angew. Chem. Int. Ed. Engl. 2009; 48:6828-31 Full Text | CMC Update Article.
  • Machacek M, Hodgson L, Welch C, Elliott H, Pertz O, Nalbant P, Abell A, Johnson GL, Hahn KM, Danuser G. Coordination of Rho GTPase activities during cell protrusion. Nature 2009; 461:99-103 Full Text | CMC Update Article.
  • McLean MA, Rajfur Z, Chen Z, Humphrey D, Yang B, Sligar SG, Jacobson K. Mechanism of chromophore assisted laser inactivation employing fluorescent proteins. Anal. Chem. 2009; 81:1755-61 Full Text | CMC Update Article.
  • Sainlos M, Iskenderian WS, Imperiali B. A general screening strategy for peptide-based fluorogenic ligands: probes for dynamic studies of PDZ domain-mediated interactions. J. Am. Chem. Soc. 2009; 131:6680-2 Full Text.
  • Sebbagh M, Santoni MJ, Hall B, Borg JP, Schwartz MA. Regulation of LKB1/STRAD localization and function by E-cadherin. Curr. Biol. 2009; 19:37-42 Full Text.
  • Wu YI, Frey D, Lungu OI, Jaehrig A, Schlichting I, Kuhlman B, Hahn KM. A genetically encoded photoactivatable Rac controls the motility of living cells. Nature 2009; 461:104-8 Full Text | CMC Update Article.

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  • Cai X, Lietha D, Ceccarelli DF, Karginov AV, Rajfur Z, Jacobson K, Hahn KM, Eck MJ, Schaller MD. Spatial and temporal regulation of focal adhesion kinase activity in living cells. Mol. Cell. Biol. 2008; 28:201-14 Full Text | CMC Update Article.
  • El-Sibai M, Pertz O, Pang H, Yip SC, Lorenz M, Symons M, Condeelis JS, Hahn KM, Backer JM. RhoA/ROCK-mediated switching between Cdc42- and Rac1-dependent protrusion in MTLn3 carcinoma cells. Exp. Cell Res. 2008; 314:1540-52 Full Text.
  • Garrett SC, Hodgson L, Rybin A, Toutchkine A, Hahn KM, Lawrence DS, Bresnick AR. A biosensor of S100A4 metastasis factor activation: inhibitor screening and cellular activation dynamics. Biochemistry 2008; 47:986-96 PubMed.
  • Hall B, McLean MA, Davis K, Casanova JE, Sligar SG, Schwartz MA. A fluorescence resonance energy transfer activation sensor for Arf6. Anal. Biochem. 2008; 374:243-9 Full Text | CMC Update Article.
  • Healy KD, Hodgson L, Kim TY, Shutes A, Maddileti S, Juliano RL, Hahn KM, Harden TK, Bang YJ, Der CJ. DLC-1 suppresses non-small cell lung cancer growth and invasion by RhoGAP-dependent and independent mechanisms. Mol. Carcinog. 2008; 47:326-37 Full Text | CMC Update Article.
  • Hodgson L, Pertz O, Hahn KM. Design and optimization of genetically encoded fluorescent biosensors: GTPase biosensors. Methods Cell Biol. 2008; 85:63-81 PubMed | CMC Update Article.
  • Jacobson K, Rajfur Z, Vitriol E, Hahn K. Chromophore-assisted laser inactivation in cell biology. Trends Cell Biol. 2008; 18:443-50 PubMed | CMC Update Article.
  • Loving G, Imperiali B. A versatile amino acid analogue of the solvatochromic fluorophore 4-N,N-dimethylamino-1,8-naphthalimide: a powerful tool for the study of dynamic protein interactions. J. Am. Chem. Soc. 2008; 130:13630-8 Full Text.
  • Luković E, González-Vera JA, Imperiali B. Recognition-domain focused chemosensors: versatile and efficient reporters of protein kinase activity. J. Am. Chem. Soc. 2008; 130:12821-7 Full Text | CMC Update Article.
  • Sabouri-Ghomi M, Wu Y, Hahn K, Danuser G. Visualizing and quantifying adhesive signals. Curr. Opin. Cell Biol. 2008; 20:541-50 Full Text | CMC Update Article.
  • Shen F, Hodgson L, Price JH, Hahn KM. Digital differential interference contrast autofocus for high-resolution oil-immersion microscopy. Cytometry A 2008; 73:658-66 PubMed | CMC Update Article.

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  • Birkenfeld J, Nalbant P, Bohl BP, Pertz O, Hahn KM, Bokoch GM. GEF-H1 modulates localized RhoA activation during cytokinesis under the control of mitotic kinases. Dev. Cell 2007; 12:699-712 Full Text | CMC Update Article.
  • El-Sibai M, Nalbant P, Pang H, Flinn RJ, Sarmiento C, Macaluso F, Cammer M, Condeelis JS, Hahn KM, Backer JM. Cdc42 is required for EGF-stimulated protrusion and motility in MTLn3 carcinoma cells. J. Cell. Sci. 2007; 120:3465-74 PubMed | CMC Update Article.
  • Frantz C, Karydis A, Nalbant P, Hahn KM, Barber DL. Positive feedback between Cdc42 activity and H+ efflux by the Na-H exchanger NHE1 for polarity of migrating cells. J. Cell Biol. 2007; 179:403-10 Full Text | CMC Update Article.
  • Sainlos M, Imperiali B. Tools for investigating peptide-protein interactions: peptide incorporation of environment-sensitive fluorophores via on-resin derivatization. Nat Protoc 2007; 2:3201-9 PubMed | CMC Update Article.
  • Sainlos M, Imperiali B. Synthesis of anhydride precursors of the environment-sensitive fluorophores 4-DMAP and 6-DMN. Nat Protoc 2007; 2:3219-25 PubMed | CMC Update Article.
  • Sainlos M, Imperiali B. Tools for investigating peptide-protein interactions: peptide incorporation of environment-sensitive fluorophores through SPPS-based 'building block' approach. Nat Protoc 2007; 2:3210-8 PubMed | CMC Update Article.
  • Toutchkine A, Han WG, Ullmann M, Liu T, Bashford D, Noodleman L, Hahn KM. Experimental and DFT studies: novel structural modifications greatly enhance the solvent sensitivity of live cell imaging dyes. J Phys Chem A 2007; 111:10849-60 PubMed | CMC Update Article.
  • Toutchkine A, Nguyen DV, Hahn KM. Merocyanine dyes with improved photostability. Org. Lett. 2007; 9:2775-7 PubMed | CMC Update Article.
  • Toutchkine A, Nguyen DV, Hahn KM. Simple one-pot preparation of water-soluble, cysteine-reactive cyanine and merocyanine dyes for biological imaging. Bioconjug. Chem. 2007; 18:1344-8 PubMed | CMC Update Article.
  • Venkatraman P, Nguyen TT, Sainlos M, Bilsel O, Chitta S, Imperiali B, Stern LJ. Fluorogenic probes for monitoring peptide binding to class II MHC proteins in living cells. Nat. Chem. Biol. 2007; 3:222-8 Full Text.
  • Vogel EM, Imperiali B. Semisynthesis of unnatural amino acid mutants of paxillin: protein probes for cell migration studies. Protein Sci. 2007; 16:550-6 Full Text | CMC Update Article.

2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Hodgson L, Nalbant P, Shen F, Hahn K. Imaging and photobleach correction of Mero-CBD, sensor of endogenous Cdc42 activation. Meth. Enzymol. 2006; 406:140-56 PubMed | CMC Update Article.
  • Moissoglu K, Schwartz MA. Integrin signalling in directed cell migration. Biol. Cell 2006; 98:547-55 PubMed | CMC Update Article.
  • Moissoglu K, Slepchenko BM, Meller N, Horwitz AF, Schwartz MA. In vivo dynamics of Rac-membrane interactions. Mol. Biol. Cell 2006; 17:2770-9 Full Text | CMC Update Article.
  • Pertz O, Hodgson L, Klemke RL, Hahn KM. Spatiotemporal dynamics of RhoA activity in migrating cells. Nature 2006; 440:1069-72 PubMed | CMC Update Article.
  • Shen F, Hodgson L, Hahn K. Digital autofocus methods for automated microscopy. Meth. Enzymol. 2006; 414:620-32 PubMed.
  • Shen F, Hodgson L, Rabinovich A, Pertz O, Hahn K, Price JH. Functional proteometrics for cell migration. Cytometry A 2006; 69:563-72 PubMed.
  • Shults MD, Carrico-Moniz D, Imperiali B. Optimal Sox-based fluorescent chemosensor design for serine/threonine protein kinases. Anal. Biochem. 2006; 352:198-207 PubMed.
  • Van Keymeulen A, Wong K, Knight ZA, Govaerts C, Hahn KM, Shokat KM, Bourne HR. To stabilize neutrophil polarity, PIP3 and Cdc42 augment RhoA activity at the back as well as signals at the front. J. Cell Biol. 2006; 174:437-45 Full Text.
  • Wang YL, Hahn KM, Murphy RF, Horwitz AF. From imaging to understanding: Frontiers in Live Cell Imaging, Bethesda, MD, April 19-21, 2006. J. Cell Biol. 2006; 174:481-4 Full Text | CMC Update Article.
  • Wong K, Pertz O, Hahn K, Bourne H. Neutrophil polarization: spatiotemporal dynamics of RhoA activity support a self-organizing mechanism. Proc. Natl. Acad. Sci. U.S.A. 2006; 103:3639-44 Full Text.

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  • Carrigan CN, Imperiali B. The engineering of membrane-permeable peptides. Anal. Biochem. 2005; 341:290-8 PubMed | CMC Update Article.
  • Rothman DM, Shults MD, Imperiali B. Chemical approaches for investigating phosphorylation in signal transduction networks. Trends Cell Biol. 2005; 15:502-10 PubMed | CMC Update Article.
  • Shults MD, Janes KA, Lauffenburger DA, Imperiali B. A multiplexed homogeneous fluorescence-based assay for protein kinase activity in cell lysates. Nat. Methods 2005; 2:277-83 PubMed | CMC Update Articles: 1, 2.
  • Vázquez ME, Blanco JB, Imperiali B. Photophysics and biological applications of the environment-sensitive fluorophore 6-N,N-dimethylamino-2,3-naphthalimide. J. Am. Chem. Soc. 2005; 127:1300-6 PubMed | CMC Update Article.

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  • Nalbant P, Hodgson L, Kraynov V, Toutchkine A, Hahn KM. Activation of endogenous Cdc42 visualized in living cells. Science 2004; 305:1615-9 PubMed | CMC Update Article.
  • Pertz O, Hahn KM. Designing biosensors for Rho family proteins--deciphering the dynamics of Rho family GTPase activation in living cells. J. Cell. Sci. 2004; 117:1313-8 PubMed.
  • Tan, X, Nalbant, P, Toutchkine, A, Hu, D, Vorpagel, ER, Hahn, KM, Lu, HP. Single Molecule Study of Protein-Protein Interaction Dynamics in a Cell Signaling System.. J. Phys. Chem. B 2004; 108:737-744 DOI.
  • Vazquez, ME,, Rothman, DM,, Imperiali, B. New Environment-Sensitive Fluorescent Amino Acid Building Block for Solid Phase Peptide Synthesis.. Org. Biomol. Chem 2004; 2:1965-1966 DOI.

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  • Gaits F, Hahn K. Shedding light on cell signaling: interpretation of FRET biosensors. Sci. STKE 2003; 2003:PE3 PubMed | CMC Update Article.
  • Ridley AJ, Schwartz MA, Burridge K, Firtel RA, Ginsberg MH, Borisy G, Parsons JT, Horwitz AR. Cell migration: integrating signals from front to back. Science 2003; 302:1704-9 PubMed.
  • Shults MD, Imperiali B. Versatile fluorescence probes of protein kinase activity. J. Am. Chem. Soc. 2003; 125:14248-9 PubMed | CMC Update Article.
  • Toutchkine A, Kraynov V, Hahn K. Solvent-sensitive dyes to report protein conformational changes in living cells. J. Am. Chem. Soc. 2003; 125:4132-45 PubMed.
  • Tzima E, Kiosses WB, del Pozo MA, Schwartz MA. Localized cdc42 activation, detected using a novel assay, mediates microtubule organizing center positioning in endothelial cells in response to fluid shear stress. J. Biol. Chem. 2003; 278:31020-3 PubMed.

2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Del Pozo MA, Kiosses WB, Alderson NB, Meller N, Hahn KM, Schwartz MA. Integrins regulate GTP-Rac localized effector interactions through dissociation of Rho-GDI. Nat. Cell Biol. 2002; 4:232-9 PubMed.
  • Gardiner EM, Pestonjamasp KN, Bohl BP, Chamberlain C, Hahn KM, Bokoch GM. Spatial and temporal analysis of Rac activation during live neutrophil chemotaxis. Curr. Biol. 2002; 12:2029-34 PubMed.
  • Katsumi A, Milanini J, Kiosses WB, del Pozo MA, Kaunas R, Chien S, Hahn KM, Schwartz MA. Effects of cell tension on the small GTPase Rac. J. Cell Biol. 2002; 158:153-64 Full Text.
  • Liu S, Kiosses WB, Rose DM, Slepak M, Salgia R, Griffin JD, Turner CE, Schwartz MA, Ginsberg MH. A fragment of paxillin binds the alpha 4 integrin cytoplasmic domain (tail) and selectively inhibits alpha 4-mediated cell migration. J. Biol. Chem. 2002; 277:20887-94 PubMed.
  • Nitz M, Mezo AR, Ali MH, Imperiali B. Enantioselective synthesis and application of the highly fluorescent and environment-sensitive amino acid 6-(2-dimethylaminonaphthoyl) alanine (DANA). Chem. Commun. (Camb.) 2002; 17:1912-3 PubMed.
  • Price JH, Goodacre A, Hahn K, Hodgson L, Hunter EA, Krajewski S, Murphy RF, Rabinovich A, Reed JC, Heynen S. Advances in molecular labeling, high throughput imaging and machine intelligence portend powerful functional cellular biochemistry tools. J. Cell. Biochem. Suppl. 2002; 39:194-210 PubMed.
  • Schwartz MA, Ginsberg MH. Networks and crosstalk: integrin signalling spreads. Nat. Cell Biol. 2002; 4:E65-8 PubMed.
  • Toutchkine A, Nalbant P, Hahn KM. Facile synthesis of thiol-reactive Cy3 and Cy5 derivatives with enhanced water solubility. Bioconjug. Chem. 2002; 13:387-91 PubMed.
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Software

  • Metamorph Routines for Fluorescence Image Processing Steps in Ratio Imaging
  • Photobleach correction Matlab routines
    • You will need Matlab 6.5 or better, along with the Image processing toolbox and Curve fitting toolbox. The software you will need to perform the novel bleaching correction described in Hodgson et al., 2005 is provided here. PB3.m is the command line version of the program, PBC.m and PBC.fig (both are required) are GUI versions of the same program. Place these files into your m-file folder or any other place (But set up proper path for it in Matlab) and run from within Matlab. The input files need to be individual tiffs, so save them as such in Metamorph. The output files will be individual tiff files which you will have to recompile into image stack file from Metamorph (Use the Find Files” command and select, then “open as stack”). If you have any question about using this software please contact us (this will link to Louis’s e-mail address)
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