Publications

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  1. He M, Huang TS, Li S, Hong HC, Chen Z, Martin M, Zhou X, Huang HY, Su SH, Zhang J, Wang WT, Kang J, Huang HD, Zhang J, Chien S, and Shyy JY. Atheroprotective flow upregulates ITPR3 in vascular Endothelium via KLF4-mediated histone modifications. Arterioscler. Thromb. Vasc. Biol. 2019, 39(5): 902-914. PubMed PMID: 30917677
  2. Clister T, Greenwald E, Hertel F, and Zhang J. AKAP95 organizes a nuclear microdomain to control local cAMP and nuclear PKA activation. Cell Chem Biol. 2019, 26(6):885-891. PubMed PMID: 30982750
  3. Qian Y, Piatkevich KD, mcLarney B, Abdelfattah AS, Mehta S, Gottschalk S, Molina RE, Murdock MH, Zhang W, Chen Y, Wu J, Drobizhev M, Hughes TE, Zhang J, Schreiter ER, Shoham S, Razansky D, Boyden ES, and Campbell RE. A genetically-encoded near-inrared fluorecent calcium ion indicator. Nat Meth. 2019, 16(2):171-174. PubMed PMID: 30664778
  4. Greenwalk E, Mehta S, and Zhang J. Genetically encoded fluorescent biosensors illuminate the spatiotemporal regulation of signaling networks. Chem Rev. 2018, 118(24):11707-11794. PubMed PMID: 30550275
  5. He W, Li N, Hard R, Ross B, Mo GCH, Stein R, Komives E, Wang Y, Zhang J, and Wang W. Deciphering and engineering chromodomain-methyllysine peptide recognition. Sci Adv, 2018, 4(11):eaau1447. PubMed PMID: 30417094
  6. Mehta S, Zhang Y, Roth RH, Mo A, Tenner B, Huganir RL, and Zhang J. Single-fluorophore biosensors for sensitive and multiplexed detection of signaling activities. Nat Cell Biol. 2018, 20(10):1215-1225. PubMed PMID: 30250062
  7. Ross BL, Tenner B, Markwardt ML, Zviman A, Shi G, Kerr JP, McFarland JJ, Mauban JR, Ward CW, Rizzo MA, and Zhang J. Single-color, ratiometric biosensors for detecting signaling activities. eLife. 2018, 7:e35458. PubMed PMID: 29968564
  8. Grimsey NJ, Narala R, Rada CC, Mehta S, Stephens BS, Kufareva I, Lapek J, Gonzalez DJ, Handel TM, Zhang J, Trejo J. A tyrosine switch on NEDD4-2 E3 ligase transmits GPCR inflammatory signaling. Cell Rep. 2018, 24(12):3312-3323. PubMed PMID: 30232011
  9. Liu SL, Wang ZG, Hu Y, Xin Y, Singaram I, Gorai S, Zhou X, Shim Y, Min JH, Gong LW, Hay N, Zhang J, and Cho W. Quantitative lipid imaging reveals a new signaling function of phosphatidylinositol-3,4-bisphosphate: isoform-and site-specific activation of Akt. Mol Cell. 2018, 71(6):1092-1104. PubMed PMID: 30174291
  10. Chen W, Yan Z, Li A, Huang X, Zhang J, and Zhong S. RNAs as proximity labeling media for identifying nucelar speckle positions relative to the genome. iScience. 2018, 4:204-215. PubMed PMID: 30240742
  11. Oldach LM, Gorshkov L, Zhang J, and Meffert MK. A Biosensor for MAPK-Dependent Lin28 Signaling. Mol Bio Cell. 2018, 29(10):1157-1167. PubMed PMID: 29540527
  12. Ni Q, Mehta S and Zhang JLive-Cell Imaging of Cell Signaling Using Genetically Encoded Fluorescent Reporters. FEBS J. 2018; 285(2):203-219.  PubMed PMID: 28613457
  13. Chen Y, Booth C, Wang H, Wang R, Zachariou V, Jiao K, Zhang J and Wang Q. Effective Attenuation of Adenosine A1R Signaling by Neurabin Requires Oligomerization of NeurabinMol Pharmacol. 2017 Dec; 92(6): 630-639.
  14. Mehta S and Zhang J. Illuminating the cell’s biochemical activity architecture. Biochem. 2017, 56(39): 5210-5213.
  15. Nygren PJ, Mehta S, Schweppe DK, Langeberg LK, Whiting JL, Weisbrod CR, Bruce JE, Zhang J, Veesler D, Scott JD. Intrinsic disorder within AKAP79 fine-tunes anchored phosphatase activity toward substrates and inhibitor drugs. eLife, 2017; 6: e30872
  16. Mo GCH, Ross B, Hertel F, Manna P, Yang X, Greenwald E, Booth C, Plummer AM, Tenner B, Chen Z, Wang Y, Kennedy EJ, Cole PA, Fleming KG, Palmer A, Jimenez R, Xiao J, Dedecker P, and Zhang J. Genetically-Encoded Biosensors for Visualizing Live-cell Biochemical Activity at Superresolution. Nat. Met. 2017; 14(4): 427-434. PubMed PMID: 28288122
  17. Gorshkov K, Mehta S, Ramamurthy S, Ronnett GV, Zhou F-Q, Zhang J. AKAP-mediated feedback control of cAMP gradients in developing hippocampal neurons. Nature Chem. Biol. 2017; 13(4): 425-431. PubMed PMID: 28192412
  18. Rodriguez EA, Campbell RE, Lin JY, Lin MZ, Miyawaki A, Palmer AE, Shu X, Zhang J, Tsien RY. The Growing and Glowing Toolbox of Fluorescent and Photoactive Proteins. Trends Biochem Sci. 2017, 42(2): 111-129. PubMed PMID: 27814948
  19. Newman RH, Zhang JIntegrated Strategies to Gain a Systems-Level View of Dynamic Signaling Networks. Methods Enzymol. 2017; 589:133-170. PubMed PMID: 28336062
  20. Palmer AE, Zhang J. Roger Y. Tsien 1952-2016. Nat Chem Biol. 2016, 12(11):887. PubMed PMID: 27669418
  21. Zhou X, Li S, Zhang J. Tracking the Activity of mTORC1 in Living Cells Using Genetically Encoded FRET-based Biosensor TORCAR. Curr Protoc Chem Biol. 2016; 8(4):225-233. PubMed PMID: 27925667
  22. Tenner B, Mehta S, Zhang J. Optical sensors to gain mechanistic insights into signaling assemblies. Curr Opin Struct Biol. 2016; 41:203-210. PubMed PMID: 27611602
  23. Ross B, Mehta S, Zhang J. Molecular tools for acute spatiotemporal manipulation of signal transduction. Curr Opin Chem Biol. 2016; 34:135-142. PubMed PMID: 27639090
  24. Conlon P, Gelin-Licht R, Ganesan A, Zhang J, and Levchenko A. Single-cell dynamics and variability of MAPK activity in a yeast differentiation pathway. Proc. Natl. Acad. Sci. USA, 2016, 113(40): E5896-E5905. PubMed PMID: 27651485
  25. Hung W-C*, Yang JR*, Yankaskas C, Wong BS, Wu P-H, Pardo-Pastor C, Serra SA, Chiang M-J, Gu Z, Wirtz D, Valverde MA, Yang JT†, Zhang J†, and Konstantopoulos K†. Confinement-sensing and Signal Optimization via Piezo1/PKA and Myosin II pathways. *Equal contribution. †Co-corresponding authors. Cell Rep. 2016, 15 (7): 1430-1441. PubMed PMID: 27160899
  26. Moore BS, Stepanchick AN, Tewson PH, Hartle CM, Zhang J, Quinn AM, Hughes TE, Mirshahi T. Cilia have high cAMP levels that are inhibited by Sonic Hedgehog-regulated calcium dynamics. Proc Natl Acad Sci U S A. 2016, 113(46): 13069-13074. PubMed PMID: 27799542
  27. Zhang J. An Interview with Jin Zhang. Trends Pharmacol Sci. 2016, 37(8):619-20. PubMed PMID: 27290877
  28. Hertel F, Mo GCH, Duwé S, Dedecker P, and Zhang J. RefSOFI for Mapping Nanoscale Organization of Protein-protein Interactions in Living cells. Cell Rep. 2016, 14(2):390-400. PubMed PMID: 26748717
  29. Depry C, Mehta S, Li R, Zhang J. Visualization of Compartmentalized Kinase Activity Dynamics Using Adaptable BimKARs. Chem Biol. 2015, 22(11): 1470-9. PubMed PMID: 26548610
  30. Yaniv Y, Ganesan A, Yang D, Ziman BD, Lyashkov AE, Levchenko A, Zhang J, Lakatta EG. Real-time relationship between PKA biochemical signal network dynamics and increased action potential firing rate in heart pacemaker cells: Kinetics of PKA activation in heart pacemaker cells. J Mol Cell Cardiol. 2015, 86:168-78. PubMed PMID: 26241846
  31. Hu J, Neiswinger J, Zhang J, Zhu H, Qian J. Systematic Prediction of Scaffold Proteins Reveals New Design Principles in Scaffold-Mediated Signal Transduction. PLoS Comput Biol. 2015, 11(9): e1004508. PubMed PMID: 26393507
  32. Sample V, Ramamurthy S, Gorshkova K, Ronnett GV and Zhang J. Polarized activities of AMPK and BRSK in primary hippocampal neurons. Mol Biol Cell, 2015, 26(10):1935-46. PubMed PMID: 25788287
  33. Miyamoto T†, Rho E, Sample V, Akano H, Magari M, Ueno T, Gorshkov K, Chen M, Tokumitsu H, Zhang J†, and Inoue T†. Compartmentalized AMPK signaling illuminated by genetically encoded molecular sensors and actuators. †Co-corresponding authors. Cell Rep. 2015, 11(4):657-70.  PubMed PMID: 25892241
  34. Zhou X, Clister TL, Lowry PR, Seldin MM, Wong GW and Zhang J. Dynamic Visualization of mTORC1 Activity in Living Cells. Cell Rep. 2015, 10(10): 1767-1777. PubMed PMID: 25772363
  35. Mehta S and Zhang J. Light moves mountains in the cell. Chem. Biol. 2015, 22(5):569-70. PubMed PMID: 26000746
  36. Mo GCH, Ganesan A and Zhang J. Prototypical Kinase Sensor Design Motifs For In Vitro And In Vivo Imaging. A book chapter in “Optical Probes in Biology”, edited by Zhang J, Mehta S and Schultz C, Taylor & Francis Group LLC.
  37. Mehta S and Zhang J. Dynamic visualization of calcium-dependent signaling in cellular microdomains. Cell Calcium, 2015. 58(4):333-41. PubMed PMID: 25703691
  38. Clister T, Mehta S, and Zhang J. Single-cell analysis of G-protein signal transduction. J Biol. Chem. 2015, 290(11):6681-6688. PubMed PMID: 25605723
  39. Ding Y, Li J, Enterina JR, Shen Y, Zhang I, Tewson PH, Mo GC, Zhang J, Quinn AM, Hughes TE, Maysinger D, Alford SC, Zhang Y, Campbell RE. Ratiometric biosensors based on dimerization-dependent fluorescent protein exchange. Nat. Met. 2015, 12(3):195-8. PubMed PMID: 25622108
  40. Weng HJ, Patel KN, Jeske NA, Bierbower SM, Zou W, Tiwari V, Zheng Q, Tang Z, Mo GC, Wang Y, Geng Y, Zhang J, Guan Y, Akopian AN, Dong X. Tmem100 Is a Regulator of TRPA1-TRPV1 Complex and Contributes to Persistent Pain. Neuron. 2015, 85(4): 833-46. PubMed PMID: 25640077
  41. Dou H, Wang C, Wu X, Yao L, Zhang X, Teng S, Xu H, Liu B, Wu Q, Zhang Q, Hu M, Wang Y, Wang L, Wu Y, Shang S, Kang X, Zheng L, Zhang J, Raoux M, Lang J, Li Q, Su J, Yu X, Chen L, Zhou Z. Calcium influx activates adenylyl cyclase 8 for sustained insulin secretion in rat pancreatic beta cells. Diabetologia. 2015; 58(2):324-33. PubMed PMID: 25381556.
  42. Mehta S, Aye-Han N, Ganesan A, Oldach L, Gorshkov K, and Zhang J. Calmodulin-controlled Spatial Decoding of Oscillatory Ca2+ Signals by Calcineurin. eLife, 2014, 3: e03865. PubMed PMID: 25056880
  43. Wang Y, Ho TG, Bertinetti D, Neddermann M, Franz E, Mo GC, Schendowich LP, Sukhu A, Spelts RC, Zhang J, Herberg FW, Kennedy EJ. Isoform-selective disruption of AKAP-localized PKA using hydrocarbon stapled peptides. ACS Chem Biol. 2014, 9(3): 635-42. PubMed PMID: 24422448
  44. Newman RH, Zhang J, Zhu H. Toward a systems-level view of dynamic phosphorylation networks. Front Genet. 2014; 5:263. PubMed PMID: 25177341
  45. Gorshkov K, and Zhang J. Visualization of cyclic nucleotide dynamics in neurons. Front. Cell. Neurosci. 2014, 8: 395. PubMed PMID: 25538560
  46. Gorshkov K and Zhang J. Monitoring Cyclic Nucleotides Using Genetically Encoded Fluorescent Reporters. A book chapter in “Cyclic Nucleotide Signaling”, edited by Cheng X. Taylor Francis Group, 2015.
  47. Fu Q, Kim S, Soto D, De Arcangelis V, Dipilato L, Liu S, Xu B, Zhang J, Shi Q, Xiang YK. A long lasting β1 adrenergic receptor stimulation of cAMP/protein kinase A (PKA) signal in cardiac myocytes. J Biol Chem. 2014, 289(21):14771-81. PubMed PMID: 24713698
  48. Oldach L, Zhang J. Genetically encoded fluorescent biosensors for live-cell visualization of protein phosphorylation. Chem Biol. 2014, 21(2):186-97. PubMed PMID: 24485761
  49. Sample V, Mehta S, Zhang J. Genetically encoded molecular probes to visualize and perturb signaling dynamics in living biological systems. J. Cell Sci. 2014, 127(Pt 6): 1151-60. PubMed PMID: 24634506
  50. Newman RH, Zhang J. The Design and Application of Genetically-encodable Biosensors based on Fluorescent Proteins. Method Mol. Biol. 2014, 1071:1-16. PubMed PMID: 24052376
  51. Mehta S and Zhang J. Using a genetically encoded FRET-based reporter to visualize calcineurin phosphatase activity in living cells. Method Mol. Biol. 2014, 1071:139-49. PubMed PMID: 24052386
  52. Aye-Han N, Zhang J. Multi-parameter Live Cell Imaging Approach to Monitor Cyclic AMP and Protein Kinase A Dynamics in ParallelMethod Mol. Biol. 2014, 1071:207-15. PubMed PMID: 24052391
  53. Robinson KH, Yang JR, Zhang J. FRET and BRET-based biosensors in live cell compound screens. Method Mol. Biol.  2014, 1071:217-25. PubMed PMID: 24052392
  54. Hu J, Rho HS, Newman RH, Zhang J, Zhu H, Qian J. PhosphoNetworks: a database for human phosphorylation networksBioinformatics 2014, 30(1):141-2. PubMed PMID: 24227675
  55. Cazabat L, Ragazzon B, Varin A, Potier-Cartereau M, Vandier C, Vezzosi D, Risk-Rabin M, Guellich A, Schittl J, Lechêne P, Richter W, Nikolaev VO, Zhang J, Bertherat J, Vandecasteele G. Inactivation of the Carney complex gene 1 (PRKAR1A) alters spatiotemporal regulation of cAMP and cAMP-dependent protein kinase: a study using genetically encoded FRET-based reporters. Hum Mol Genet. 2014; 23(5):1163-74. PubMed PMID: 24122441
  56. Hertel F, Zhang J. Monitoring of post-translational modification dynamics with genetically encoded fluorescent reporters. Biopolymers. 2014; 101(2):180-7. PubMed PMID: 23576192
  57. Woodard CL, Goodwin CR, Wan J, Xia S, Hu J, Newman RH, Zhang J, Hayward, SD, Qian J, Laterra J, Zhu H. Profiling the dynamics of a human phosphorylome reveals new components in HGF/c-Met signaling. PLoS One, 2013; 8(9): e72671. PubMed PMID: 24023761 
  58. Burdyga A, Conant A, Haynes L, Zhang J, Jalink K, Sutton R, Neoptolemos J, Costello E, and Tepikin A. cAMP inhibits migration, ruffling and paxillin accumulation in focal adhesions of pancreatic ductal adenocarcinoma cells: Effects of PKA and EPAC. Biochim. Biophys. Acta. 2013, 1833(12): 2664-2672. PubMed PMID: 23797058
  59. Hu J*, Rho HS*, Newman RH*, Hwang W, Neiswinger J, Zhu H, Zhang J, Qian J. Global analysis of phosphorylation networks in humans. *Equal contribution. Co-corresponding authors. Biochim Biophys Acta.2013, S1570-9639(13)00122-2. PubMed PMID: 23524292
  60. Huang J, Yang JR, Zhang J, Yang J. Total Synthesis and Structure-Activity Relationship Study of the Potent cAMP Signaling Agonist (-)-Alotaketal A. Co-corresponding authors. Org. Biomol. Chem. 2013, 11(19):3212-22. PubMed PMID: 23584129
  61. Nunes AR, Holmes AP, Sample V, Kumar P, Cann MJ, Monteiro EC, Zhang J, Gauda EB. Bicarbonate-Sensitive Soluble and Transmembrane Adenylyl Cyclases in Peripheral Chemoreceptors. Respir. Physiol. Neurobiol. 2013, 188(2):83-93. PubMed PMID: 23727159
  62. Newman RE*, Hu J*, Rho H*, Xie Z*, Woodard C, Neiswinger J, Hwang W, Shirley M, Hu S, Cooper C, Jeong JS, Wu G, Lin J, Gao X, Ni Q, Ji H, Desiderio S, Dalby KN, Birnbaum MJ, Cole PA, Knapp S, Ryazanov A, Zack DJ, Blackshaw S, Pawson T, Gingras A, Pandey A, Turk BE, Zhang J†, Zhu H†, Qian J†. Construction of human activity-based phosphorylation networks. *Equal contribution. †Co-corresponding authors. Mol. Syst. Biol. 2013; 9:655. PubMed PMID: 23549483
  63. Mehta S and Zhang J. Using a kinase-inducible bimolecular switch to control enzyme activity in living cells. Curr Protoc Chem Biol. 2013; 5(3): 227-37. PubMed PMID: 24391085
  64. Depry C, Mehta S, and Zhang J. Multiplexed visualization of dynamic signaling networks using genetically encoded fluorescent protein-based biosensors. Pflugers Arch. 2013; 465(3): 373-81. PubMed PMID: 23138230
  65. Sample V, Ni Q, Mehta S, Inoue T, Zhang J. Controlling Enzymatic Action in Living Cells with a Kinase-Inducible Bimolecular Switch. ACS Chem Biol. 2013; 8(1): 116-21. PubMed PMID: 23072367
  66. Dedecker P, Duwé S, Neely RK, Zhang J. Localizer: fast, accurate, open-source, and modular software package for superresolution microscopyJ. Biomed. Opt. 2012; 17(12): 126008. PubMed PMID: 23208219
  67. Nunes AR, Sample V, Xiang YK, Monteiro EC, Gauda E, Zhang J. Effect of oxygen on phosphodiesterases (PDE) 3 and 4 isoforms and PKA activity in the superior cervical ganglia. Adv Exp Med Biol. 2012; 758:287-94. PubMed PMID: 23080174
  68. Dancy BM, Crump NT, Peterson DJ, Mukherjee C, Bowers EM, Ahn Y, Yoshida M, Zhang J, Mahadevan LC, Meyers DJ, Boeke JD, Cole PA. Live cell studies of p300/CBP Histone Acetyltransferase Activity and Inhibition. ChemBioChem 2012; 13(14): 2113-21. PubMed PMID: 22961914
  69. Ghigo A, Perino A, Mehel H, Zahradníková A Jr, Morello F, Leroy J, Nikolaev VO, Damilano F, Cimino J, De Luca E, Richter W, Westenbroek R, Catterall WA, Zhang J, Yan C, Conti M, Gomez AM, Vandecasteele G, Hirsch E, Fischmeister R. Phosphoinositide 3-kinase γ protects against catecholamine-induced ventricular arrhythmia through protein kinase A-mediated regulation of distinct phosphodiesterases. Circulation, 2012; 126(17): 2073-83. PubMed PMID: 23008439
  70. Dedecker P, Mo GCH, Dertinger T, and Zhang J. Widely accessible method for superresolution fluorescence imaging of living systems. Co-corresponding authors. Proc. Natl. Acad. Sci. USA 2012; 109(27): 10909-14. PubMed PMID: 22711840
  71. Ganesan A and Zhang J. How cells process information: Quantification of spatiotemporal signaling dynamics. Protein Sci. 2012; 21(7): 918-28. PubMed PMID: 22573643
  72. Ferrando IM, Chaerkady R, Zhong J, Molina H, Kishore H, Herbst-Robinson K, Dancy BM, Katju V, Bose R, Zhang J, Pandey A, Cole PA. Identification of targets of c-Src tyrosine kinase by chemical complementation and phosphoproteomics. Mol Cell Proteomics. 2012; 11(8):355-69. PubMed PMID: 22499769
  73. Huang J, Yang J, Zhang J and Yang J. Total Synthesis of the Potent cAMP Signaling Agonist (-)-Alotaketal A. Co-corresponding authors. J. Am. Chem. Soc. 2012; 134(21): 8806-9. PubMed PMID: 22563931
  74. Aye-Han NN, Allen MD, Ni Q, and Zhang J. Parallel tracking of cAMP and PKA signaling dynamics in living cells with FRET-based fluorescent biosensors. Mol. Biosyst. 2012; 8(5):1435-40. PubMed PMID: 22362165
  75. Sample V*, DiPilato LM*, Yang J*, Ni Q1, Saucerman JJ and Zhang J. Regulation of Nuclear PKA revealed by spatiotemporal manipulation of cAMP. *Equal contribution. Co-corresponding authors. Nat. Chem. Biol. 2012; 8(4): 375-82. PubMed PMID: 22366721
  76. del Puerto A, Díaz-Hernández J, Tapia M, Gómez-Villafuertes R, Benitez M, Zhang J, Miras-Portugal M, Wandosell F, Díaz-Hernandez M, and Garrido J. Adenylate cyclase 5 coordinates the action of ADP, P2Y1, P2Y13, and ATP-gated P2X7 receptors on axonal elongation. J. Cell Sci. 2012; 125 (Pt 1): 176-88. PubMed PMID: 22250198
  77. Zhou X, Herbst-Robinson KJ and Zhang J. Visualizing dynamic activities of signaling enzymes using genetically encodable FRET-based biosensors from designs to applications. Method Enzymol. 2012; 504:317-40. PubMed PMID: 22264542
  78. Gao X, Lowry P, Zhou X, Depry C, Wei Z, Wong GW, and Zhang J. PI3K/Akt signaling requires spatial compartmentalization in plasma membrane microdomains. Proc. Natl. Acad. Sci. USA 2011; 108(35): 14509-14. PubMed PMID: 21873248
  79. Chakir K, Depry C, Dimaano VL, Zhu W, Vanderheyden M, Bartunek J, Abraham TP, Tomaselli GF, Liu S, Xiang YK, Zhang M, Takimoto E, Dulin N, Xiao RP, Zhang J, and Kass DA. Gαs-Biased ß2-Adrenergic Signaling from Restoring Synchronous Contraction in the Failing Heart. Sci. Transl. Med. 2011; 3(100): 100ra88. PubMed PMID: 21918105
  80. Depry C and Zhang J. Using FRET-Based Reporters to Visualize Subcellular Dynamics of Protein Kinase A Activity. Method Mol. Biol. 2011; 756: 285-94. PubMed PMID: 21870233
  81. Herbst KJ, Allen MD, and Zhang J. Spatiotemporally regulated PKA activity is a critical regulator of growth factor-stimulated ERK signaling in PC12 cells. Mol. Cell Biol. 2011; 31(19): 4063-75. PubMed PMID: 21807900
  82. Herbst KJ, Allen MD, and Zhang J. Luminescent kinase activity biosensors based on a versatile molecular switch. J. Am. Chem. Soc. 2011; 133(15): 5676-9 PubMed PMID: 21438554
  83. Mehta S and Zhang J. Reporting from the Field ─ Genetically-Encoded Fluorescent Reporters Uncover Signaling Dynamics in Living Biological Systems. Annu. Rev. Biochem. 2011; 80: 375-401. PubMed PMID: 21495849
  84. Newman RH, Fosbrink M and Zhang J. Genetically Encoded Fluorescent Biosensors for Tracking Signaling Dynamics in Living Cells. Chem. Rev. 2011; 111(5): 3614-66. PubMed PMID: 21456512
  85. Wan M, Li J, Herbst K, Zhang J, Yu B, Wu X, Qiu T, Lei W, Lindvall C, Williams BO, Ma H, Zhang F and Cao X. LRP6 Mediates GPCR-Induced cAMP Generation by Regulation of Gαs Membrane Targeting. Sci. Sig. 2011; 4(164): ra15. PubMed PMID: 21406690
  86. Herbst KJ, Coltharp C, Amzel LM and Zhang J. Direct Activation of Epac by Sulfonylurea is Isoform Selective. Chem. Biol. 2011; 18(2): 243-51. PubMed PMID: 21338921
  87. Liu S, Zhang J, and Xiang Y. FRET-based direct detection of dynamic protein kinase A activity on the sarcoplasmic reticulum in cardiomyocytes. Biochem. Biophys. Res. Commun. 2011; 404(2): 581-6. PubMed PMID: 21130738
  88. Ni Q*, Ganesan A*, Aye-Han N*, Gao X, Allen MD, Levchenko A, and Zhang J. Signaling Diversity of PKA via a Ca2+-cAMP-PKA Oscillatory Circuit. *Equal contribution. Co-corresponding authors. Nat. Chem. Biol. 2011; 7(1): 34-40. PubMed PMID: 21102470
  89. Depry C, Allen MD, and Zhang J. Visualization of PKA activity in Plasma Membrane Microdomains. Mol. BioSyst., 2011, 7(1): 52-8. PubMed PMID: 20838685
  90. Gildea JJ, Shah I, Weiss R, Casscells ND, McGrath HE, Zhang J, and Felder RA. HK-2 Human Renal Proximal Tubule Cells as a Model for G Protein-Coupled Receptor Kinase Type 4-Mediated Dopamine 1 Receptor Uncoupling. Hypertension 2010; 56(3): 505-11. PubMed PMID: 20660820
  91. Depry C and Zhang J. Visualization of kinase activity with FRET-based activity biosensors. Curr. Protoc. Mol. Biol. 2010; Chapter 18: Unit 18.15. PubMed PMID: 20583095
  92. Yamashiro T, Kuge H, Zhang J and Honke K. Calcineurin Mediates The Angiotensin II-induced Aldosterone Synthesis in the Adrenal Glands by Upregulation of Transcription of The CYP11B2 Gene. J. Biochem. 2010; 148(1):115-23. PubMed PMID: 20413672.
  93. Fosbrink M, Aye-Han N and Zhang J. Visualization of JNK Activity Dynamics with a Genetically Encoded Fluorescent Biosensor. Proc. Natl. Acad. Sci. USA 2010; 107(12): 5459-64. PubMed PMID: 20212108
  94. Gao X and Zhang J. FRET-based activity biosensors to probe compartmentalized signaling. Chembiochem 2010; 11(2): 147-51. PubMed PMID: 20014085
  95. DiPilato LM and Zhang J. Fluorescent protein-based biosensors: resolving spatiotemporal dynamics of signaling. Curr. Opin. Chem. Biol. 2010;14(1): 37-42. PubMed PMID: 19910237
  96. Ni Q, Zhang J. Dynamic visualization of cellular signaling. Adv Biochem Eng Biotechnol. 2010; 119:79-97. PubMed PMID: 19499207
  97. Gildea JJ, Israel JA, Johnson AK, Zhang J, Jose PA and Felder RA. Caveolin-1 and dopamine-mediated internalization of NaKATPase in human renal proximal tubule cells. Hypertension 2009; 54(5):1070-6. PubMed PMID: 19752292
  98. Sample V, Newman RH and Zhang J. The Structure and Function of Fluorescent Proteins. Chem. Soc. Rev. 2009; 38(10): 2852-64. PubMed PMID: 19771332
  99. Aye-Han N, Ni Q and Zhang J. Fluorescence Biosensors for Real Time Tracking of Post-translational Modification Dynamics. Curr. Opin. Chem. Biol. 2009; 13(4): 392-7. PubMed PMID: 19682946
  100. Herbst K, Ni Q and Zhang J. Dynamic Visualization of Signal Transduction in Living Cells: from Second Messegners to Kinases. IUBMB Life 2009; 61(9): 902-8. PubMed PMID: 19603514
  101. DiPilato LM and Zhang J. The role of membrane microdomains in shaping β2-adrenergic receptor-mediated cAMP dynamics. Mol. BioSyst. 2009; 5(8): 832-7. PubMed PMID: 19603118
  102. Herbst K, Allen MD and Zhang J. The cAMP-dependent Protein Kinase Inhibitor H-89 Attenuates the Bioluminescent Signal Produced by Renilla Luciferase. PLoS ONE 2009; 4(5): e5642. PubMed PMID: 19461967
  103. Soto D, De Arcangelis V, Zhang J and Xiang Y. Dynamic PKA activities induced by b adrenoceptors dictate signaling propagation for substrate phosphorylation and myocyte contraction. Circ Res. 2009; 104(6):770-9. PubMed PMID: 19213958
  104. Seong J, Lu S, Ouyang M, Huang H, Zhang J, Frame MC and Wang Y. Visualization of Src activity at different compartments of the plasma membrane by FRET imaging. Chem. Biol. 2009; 16(1):48-57. PubMed PMID: 19171305
  105. Zhang J. The colorful journey of green fluorescent protein. ACS Chem. Biol. 2009; 4(2): 85-8. PubMed PMID: 19228068
  106. Rahdar M, Inoue T, Meyer T, Zhang J, Vazquez F and Devreotes PN. A phosphorylation-dependent intramolecular interaction regulates the membrane association and activity of the tumor suppressor PTEN. Proc. Natl. Acad. Sci. USA 2009; 106(2):480-5. PubMed PMID: 19114656
  107. Ren YR, Pan F, Parvez S, Fleig A, Chong CR, Xu J, Dang Y, Zhang J, Jiang H, Penner R and Liu JO. Clofazimine inhibits human Kv1.3 potassium channel by perturbing calcium oscillation in T lymphocytes. PLoS ONE 2008; 3(12): e4009. PubMed PMID: 19104661
  108. Vincent P, Gervasi N and Zhang J. Real-time monitoring of cyclic nucleotide signaling in neurons using genetically-encoded FRET probes. Brain Cell Biol. 2008; 36: 3-17. PubMed PMID: 18941898
  109. Ananthanarayanan B, Ni Q and Zhang J. Molecular sensors based on fluorescence resonance energy transfer to visualize cellular dynamics. Method Cell Biol. 2008; 89: 37-57. PubMed PMID: 19118671
  110. Lim CJ, Kain KH, Tkachenko E, Goldfinger LE, Gutierrez E, Allen MD, Groisman A, Zhang J and Ginsberg MH. Integrin-mediated Protein Kinase A Activation at the Leading Edge of Migrating Cells. Mol. Biol. Cell 2008; 19(11): 4930-4941. PubMed PMID: 18784251
  111. Szewczuk LM, Tarrant MK, Sample V, Drury WJ 3rd, Zhang J and Cole PA. Aalysis of Serotonin N-Acetyltransferase Regulation in Vitro and in Live Cells Using Protein Semisynthesis. Biochemistry 2008; 47(39): 10407-19. PubMed PMID: 18771288
  112. Gao X and Zhang J. Spatiotemporal Analysis of Differential Akt Regulation in Plasma Membrane Microdomains. Mol. Biol. Cell 2008; 19(10): 4366-73. PubMed PMID: 18701703
  113. DiPilato LM and Zhang J. Second Messengers in Cellular Signaling. Wiley Encyclopedia of Chemical Biology, 2008.
  114. Lu S, Ouyang M, Seong J, Zhang J, Chien S and Wang Y. The spatiotemporal pattern of Src activation at lipid rafts reveraled by diffusion-corrected FRET imaging. PLoS Comput. Biol. 2008; 4(7): e1000127. PubMed PMID: 18711637
  115. Newman RH and Zhang J. Small molecules and chemical tools at the interface. Nat. Chem. Biol. 2008; 4 (7) 4(7): 382-6. PubMed PMID: 18560425
  116. Newman RH and Zhang J. Visualization of phosphatase activity in living cells with a FRET-based calcineurin activity sensor. Mol. BioSyst. 2008; 4(6): 496-501. PubMed PMID: 18493642
  117. Newman RH and Zhang J. Fucci: street lights on the road to mitosis. Chem. Biol. 2008; 15(2):97-8. PubMed PMID: 18291313
  118. Violin JD*, DiPilato LM*, Yildrim N*, Elston TC, Zhang J, and Lefkowitz RJ. β2-Adrenergic Receptor Signaling and Desensitization Elucidated by Quantitative Modeling of Real-Time cAMP Dynamics. *Equal contribution. Co-corresponding authors J. Biol. Chem. 2008; 283(5): 2949-2961. PubMed PMID: 18045878
  119. Allen MD and Zhang J. A Tunable FRET Circuit for Engineering Fluorescent Biosensors. Angew. Chem. Int. Ed Engl. 2008;47(3): 500-2. PubMed PMID: 18058965
  120. Ananthanarayanan B, Fosbrink M, Rahdar M and Zhang J. Live-Cell Molecular Analysis of Akt Activation Reveals Roles for Activation Loop Phosphorylation. J. Biol. Chem. 2007; 282(50): 36634-41. PubMed PMID: 17928291
  121. Zhang J and Allen MD. FRET-based Kinase Biosensors – Illuminating the Kinome. Mol. Biosyst. 2007; 3: 759-765. PubMed PMID: 17940658
  122. Maresh J, Zhang J, Tzeng Y, Goodman NA and Lynn DG. Rational Design of Inhibitors of VirA-VirG Two-Component Signal Transduction. Bioorg. Med. Chem Lett. 2007; 17: 3281-6. PubMed PMID: 17470391
  123. Sachs BD, Baillie GS, McCall JR, Passino MA, Schachtrup C, Wallace DA, Dunlop AJ, Mackenzie KF, Klussmann E, Lynch MJ, Sikorski SL, Nuriel T, Tsigelny I, Zhang J, Houslay MD, Chao MV and Akassoglou K. p75 neurotrophin receptor regulates tissue fibrosis through inhibition of plasminogen activation via a PDE4/cAMP/PKA pathway. J. Cell Biol. 2007; 177: 1119-32. PubMed PMID: 17576803
  124. Gervasi N, Hepp R, Tricoire L, Sureau F, Zhang J, Lambolez B, Paupardin-Tritsch D and Vincent P. Dynamics of protein kinase A signaling at the membrane, in the cytosol, and in the nucleus of neurons in mouse brain slices. J. Neurosci. 2007; 27: 2744 – 2750. PubMed PMID: 17360896
  125. Dunn T, Wang C, Colicos MA, Zaccolo M, DiPilato LM, Zhang J, Tsien RY, Feller MB. Imaging of cAMP levels and PKA activity reveals that retinal waves drive oscillations in second messenger cascades. J. Neurosci. 2006; 26:12807–12815. PubMed PMID: 17151284
  126. DiPilato LM, and Zhang J. FRETting Mice Shed Light on Cardiac Adrenergic Signaling. Circ. Res. 2006; 99: 1021–1023. PubMed PMID: 17095728
  127. Allen MD and Zhang J. Subcellular Dynamics of Protein Kinase A Activity Visualized by FRET-based Reporters. Biochem. Biophys. Res. Commun. 2006; 348: 716-721. PubMed PMID: 16895723
  128. Allen MD, DiPilato LM, Rahdar M, Ren YR, Chong C, Liu JO and Zhang J. Reading Dynamic Kinase Activity in Living Cells for High-throughput Screening. ACS Chem. Biol. 2006; 1: 371-376. PubMed PMID: 17163774
  129. Saucerman JJ, Zhang J, Stenbit AE, Tsien RY and McCulloch AD. Systems Analysis of PKA-mediated Phosphorylation Gradients in Cardiac Myocytes. Proc. Natl. Acad. Sci. USA 2006; 103: 12923-12928. PubMed PMID: 16905651
  130. Ni Q, Titov DV and Zhang J. Analyzing Protein Kinase Dynamics in Living Cells with FRET reporters. Methods 2006; 40: 279-286. PubMed PMID: 16908183
  131. Maresh J*, Zhang J* and Lynn DG. The Innate Immunity of Maize and the Dynamic Chemical Strategies Regulating Two-Component Signal Transduction in Agrobacterium tumefaciens. ACS Chem. Biol. 2006; 1: 165-175.   * Equal contribution. PubMed PMID: 17163664
  132. Qiao Y, Molina H, Pandey A, Zhang J and Cole PA. Chemical Rescue of a Mutant Enzyme in Living Cells. Science 2006; 311: 1293-1297. PubMed PMID: 16513984
  133. Ananthanarayanan B, Ni Q, and Zhang J. Signal propagation from membrane messengers to nuclear effectors revealed by reporters of phosphoinositide dynamics and Akt activity. Proc. Natl. Acad. Sci. USA 2005; 102: 15081-15086. PubMed PMID: 16214892
  134. Zhang J*, Hupfeld CJ*, Taylor SS, Olefsky JM, and Tsien RY. Insulin Disrupts Beta-Adrenergic Receptor Signaling to Protein Kinase A in Adipocytes. Nature 2005; 437: 569-573.*Equal contribution. PubMed PMID: 16177793
  135. Kunkel MT, Ni Q, Tsien RY, Zhang J and Newton AC. Spatio-temporal dynamics of protein kinase B/Akt signaling revealed by a genetically-encoded fluorescent reporter. J. Biol. Chem. 2005; 280: 5581-5587. PubMed PMID: 15583002
  136. DiPilato LM, Cheng X, and Zhang J. Fluorescent Indicators of cAMP and Epac Activation Reveal Differential Dynamics of cAMP Signaling within Discrete Subcellular Compartments. Proc. Natl. Acad. Sci. USA 2004; 101: 16513-16518. PubMed PMID: 15545605
  137. Violin JD, Zhang J, Tsien RY and Newton AC. A Genetically Encoded Fluorescent Reporter Reveals Oscillatory Phosphorylation by Protein Kinase C. J. Cell Biol. 2003; 161: 899-909. PubMed PMID: 12782683
  138. Zhang J, Campbell RE, Ting AY and Tsien RY. Creating New Fluorescent Probes for Cell Biology. Nat. Rev. Mol. Cell Biol. 2002; 3: 906-918. PubMed PMID: 12461557
  139. Zhang J, Ma Y, Taylor SS and Tsien RY. Genetically Encoded Reporters of Protein Kinase A activity Reveal Impact of Substrate Tethering. Proc. Natl. Acad. Sci. USA 2001; 98: 14997-15002. PubMed PMID: 11752448
  140. Zhang J, Boone L, Kocz R, Zhang C, Binns AN and Lynn DG. At the Maize/Agrobacterium Interface: Natural Factors Limiting Host Transformation. Chem. Biol. 2000; 7: 611-621. PubMed PMID: 11048952
  141. Campbell AM, Tok J, Zhang J, Wang Y, Stein M, Lynn DG and Binns AN. Xenognosin Sensing in Virulence: Is there a Phenol Receptor in Agrobacterium tumefaciens?  Chem. Biol. 2000; 7: 65-76. PubMed PMID: 10662683