Collaborations & Publications

The Palmer Lab is involved in active collaborations with the following labs:

  • Natalie Ahn, CU Biochemistry, CU Biofrontiers Institute – Mass Spectrometry
  • Stephanie Bryant, CU Chemical and Biological Engineering – 3D Tissue Culture Models
  • Pascale Cossart, Institut Pasteur – Listeria Pathogenesis
  • Corrie Detweiler, CU Molecular Cellular and Developmental Biology – Salmonella Infections in Mouse Models
  • Dorota Gryko, Polish Academy of Sciences Institute of Organic Chemistry – Synthesis of Organometallic Compounds
  • Ralph Jimenez, JILA, NIST, CU Chemistry – Optically Integrated Microfluidics
  • Kevin Jones, CU Molecular Cellular Developmental Biology – Calcium and Neurodegeneration
  • Leslie Leinwand, CU Molecular Cellular Developmental Biology, CU Biofrontiers Institute – Cardiomyocyte Biology
  • Rafael Piestun, CU Department of Electrical and Computer Engineering, CU Department of Physics – Optical Radiation
  • Erik Snapp, Albert Einstein College of Medicine – Department of Anatomy and Structural Biology – Quality Control in the Endoplasmic Reticulum
  • Rotem Sorek, Weizmann Institute of Science – Microbial Genomics
  • Sabrina Spencer, CU Biochemistry – Cell Cycle Regulation
  • Alexis Templeton, CU Geological Sciences – Imaging Microbial Biofilms
  • Vladislav Verkusha, Albert Einstein College of Medicine – Department of Anatomy and Structural Biology – Fluorescent Protein Engineering
  • Adrie Von Bockhoven, UC Denver – Zinc in Prostate Cancer

The Palmer Lab is also associated with the following training programs and initiatives:

Palmer Lab Publications:

For most up to date list, click here.

62. Qin, Y., Sammond, D. W., Braselmann, E., Carpenter, M. C., & Palmer, A. E. Development of an Optical Zn2+ Probe Based on a Single Fluorescent Protein. ACS Chemical Biology. 2016.

61. McQuate, S. E., Young, A. M., Silva-Herzog, E., Bunker, E., Hernandez, M., de Chaumont, F., et al. Long-Term Live Cell Imaging Reveals New Roles For Salmonella Effector Proteins SseG and SteA. Cellular Microbiology. 2016.

60. Carpenter, M. C., & Palmer, A. E. Unraveling the mystery of the ring: Tracking heme dynamics in living cells. PNAS, 2016

59. Dean, K. M., Davis, L. M., Lubbeck, J. L., Manna, P., Friis, P., Palmer, A. E., & Jimenez, R. High-Speed Multiparameter Photophysical Analyses of Fluorophore Libraries. Analytical Chemistry. 2015.

58. Kim, T.-J., Joo, C., Seong, J., Vafabakhsh, R., Botvinick, E. L., Berns, M. W., et al. Distinct mechanisms regulating mechanical force-induced Ca2+ signals at the plasma membrane and the ER in human MSCs. eLife. 2015.

57. Carter, K. P. and Palmer, A. E. Metallobiology: zinc differently. Nature Chem. 2015.

56. Park, J. G. and Palmer, A. E. Properties and use of genetically encoded FRET sensors for cytosolic and organellar Ca2+ measurements. Cold Spring Harbor Protocols. 2015.

55. Park, J. G. and Palmer, A. E. Measuring the in situ Kd of a genetically encoded Ca2+ sensor. Cold Spring Harbor Protocols. 2015.

54. Park, J. G. and Palmer, A. E. Verifying the function and localization of genetically encoded Ca2+ sensors and converting FRET ratios to Ca2+ concentrations. Cold Spring Harbor Protocols. 2015.

53. Dean, K. M., Lubbeck, J. L., Davis, L. M., Regmi, C. K., Chapagain, P. P., Gerstman, B. S., et al. Microfluidics-based selection of red-fluorescent proteins with decreased rates of photobleaching. Integrative Biology : Quantitative Biosciences From Nano to Macro. 2014.

52. Farnsworth, N. L., Mead, B. E., Antunez, L. R., Palmer, A. E., and Bryant, S. J. Ionic osmolytes and intracellular calcium regulate tissue production in chondrocytes cultured in a 3D charged hydrogel. Matrix Biology : Journal of the International Society for Matrix Biology. 2014.

51. Dean, K. M., and Palmer, A. E. Advances in Fluorescence Labeling Strategies for Dynamic Cellular Imaging. Nature Chemical Biology, 10(7), 512–523. 2014.

50. Carter, K. P., Young, A. M., and Palmer, A. E. Fluorescent Sensors for Measuring Metal Ions in Living Systems. Chemical Reviews, 114 (8), 4564–4601. 2014.

49. Park, J.G. and Palmer A.E. Quantitative Measurement of Ca2+ and Zn2+ in Mammalian Cells Using Genetically Encoded Fluorescent Biosensors. Methods in Molecular Biology 1071, 29-47. 2013. 

48. Stavru, F., Palmer, A. E., Wang, C., Youle, R. J., and Cossart, P. Atypical mitochondrial fission upon bacterial infection. Proc Natl Acad Sci USA, 110(40), 16003–16008. 2013.

47. Qin, Y., Miranda, J. G., Stoddard, C. I., Dean, K. M., Galati, D. F., & Palmer, A. E. Direct Comparison of a Genetically Encoded Sensor and Small Molecule Indicator: Implications for Quantification of Cytosolic Zn2+. ACS Chemical Biology, 8, 2366−2371. 2013.

46. Davis, L. M., Lubbeck, J. L., Dean, K. M., Palmer, A. E., & Jimenez, R. Microfluidic cell sorter for use in developing red fluorescent proteins with improved photostability. Lab on a Chip, 13(12), 2320. 2013.

45.  Jeong J, Walker JM, Wang F, Park JG, Palmer AE, Guita C, Rohrbach M, Steinmann B, and Eide DJ.  Promotion of vesicular zinc efflux by Zip13 and its implications for spondylocheiro dysplastic Ehlers-Danlos syndrome. Proc Natl Acad Sci USA. 109(51), 2012.

44. Miranda, J. G., Weaver, A. L., Qin, Y., Park, J. G., Stoddard, C. I., Lin, M. Z., & Palmer, A. E. New Alternately Colored FRET Sensors for Simultaneous Monitoring of Zn2+ in Multiple Cellular Locations. PLoS ONE, 7(11), 2012.

43.  Geng X, Huang C, Qin Y, McCombs JE, Yuan Q, Harry BL, Palmer AE, Xia NS, and Xue D.  Hepatitits B virus X protein targerts Bcl-2 proteins to increase intracellular calcium, required for virus replication and cell death induction.  Proc Natl Acad Sci USA 2012.

42. Park, J.G., Qin, Y. Galati, D.F., and Palmer, A.E., New Sensors for Quantitative Measurement of Mitochondrial Zinc (II). ACS Chem. Biol. 7(10), 1636-40, 2012.

41. Dean, K.M., Qin, Y., and Palmer, A.E. Visualizing Metal Ions in Cells: An Overview of Analytical Techniques, Approaches, and Probes. Biochim. Biophys. Acta. 2012. Sep;1823(9)1406-1,5.

40. West, D.C., et al. Differential Effects of Procaspase-3 Activating Compounds in the Induction of Cancer Cell Death. Mol. Pharm. 2012. May 7;9(5);1425-34.

39. Lubbeck, J.L., Dean, K.M., Ma, H., and Palmer, A.E., Jimenez, R. Microfluidic Flow Cytometer for Quantifying Photobleaching of Fluorescent Proteins in Cells. Anal. Chem. 2012. May 7;9(5):1425-34.

38. Ma, H., Gibson, E.A., Dittmer, P.J., Jimenez, R., and Palmer, A.E. High-Throughput Examination of FRET-detected Metal Ion Response in Mammalian Cells. J. Am. Chem. Soc. 2012. Feb 8;134(5):2488-91.

37. Dean K.M., Lubbeck J.L., Binder J.K., Schwall L.R., Jimenez R, Palmer A.E. Analysis of Red-Fluorescent Proteins Provides Insight into Dark-State Conversion and Photodegradation. Biophys J. 2011 Aug 17;101(4):961-9.

36. Qin, Y., Dittmer, P.J., Park, J.G., Jansen, K.B., Palmer, A.E. Measuring Steady State and Dynamic ER and Golgi Zn2+ with Genetically Encoded Sensors. Proc. Nat. Acad. Sci. U S A, 108(18):7351-6.

35. Palmer AE, Qin Y, Park JG, McCombs JE. Trends Biotechnol. 2011 Mar; 29(3):144-52

34. Perocchi, F., Gohil, V.M., Girgis, H.S., Bao, X.R., McCombs, J.E., Palmer, A.E., Mootha, V.K. MICU1 encodes a mitochondrial EF hand protein required for Ca(II) uptake. Nature. 2010. Sep 16;467(7313):291-6

33. Ong DS, Mu TW, Palmer AE, Kelly JW. Endoplasmic reticulum Ca2+ increases enhance mutant glucocerebrosidase proteostasis. Nat. Chem. Biol. 2010. 6(6):424-32.

32. Palmer AE, Dittmer PJ. SNAP-shots of hydrogen peroxide in cells. Chem. Biol. 2010. 17(4):318-9.

31. McCombs J.E., Gibson E.A., Palmer A.E., Using a genetically targeted sensor to investigate the role of presinillin-1 in ER Ca(2+) levels and dynamics. Mol. Biosyst. 2010.

30. Van Engelenburg S.B., Palmer A.E., Imaging type-III secretion reveals dynamics and spatial segregation of Salmonella effectors. Nat. Methods. 2010 7(4): 325-30 * This work was highlighted in the Nat. Struct. Mol. Biol., 2010

29. Van Engelenburg S.B., Nahreini T., Palmer A.E., FACS-based selection of tandem tetracysteine peptides with improved ReAsH brightness in live cells. Chembiochem. 2010, 11(4): 489-93

28. Palmer A.E., Franz K.J., Introduction to “cellular metal homeostasis and trafficking”. Chem. Rev. 2009, 109(10): 4533-5.

27. Schafer D., Gibson E.A., Salim E.A., Palmer A.,E., Jimenez R. Microfluidic cell counter with embedded optical fibers fabricated by femtosecond laser ablation and anodic bonding. Opt. Express., 2009, 17(8): 6068-73

26. Dittmer P.J., Miranda J.G., Gorski J.A., Palmer A.E. Genetically encoded sensors to elucidate spatial distribution of cellular zinc. J. Biol. Chem. 2009, 284(24): 16289-97

25. Palmer A.E. Expanding the repertoire of fluorescent calcium sensors. ACS Chem Biol. 2009, 4(3); 157-9

24. McCombs J.E. and Palmer A.E. Measuring calcium signaling with Genetically Encoded Calcium Indicators, Methods. 2008, 46(3):152-9

23. Astori, S., Wallace, D.J., Borgloh, S.M.z.A., Yang, Y., Bausen, M., Kugler, S., Palmer, A.E., Tsien, R.Y., Sprengel, R., Kerr, J.N.D., Denk, W., and Hasan, M.T. (2008). Detection of Single Action Potentials in vitro and in vivo with a Genetically-encoded Activity Sensor, D3cpv. Nature Methods, 2008, 5(9): 797-804

22. VanEngelenburg, S.B. and Palmer, A.E., Quantitation of Real-Time Salmonella effector Type-Three Secretion Kinetics Using the Small Molecule Fluorophore FlAsH, Chemistry & Biology, 2008, 15(6): 619-628

21. Xu, C., Xu, W., Palmer, A.E., and Reed, J.C., BI-1 regulates Endoplasmic reticulum Ca2+ downstream of Bcl-2-family proteins, J. Biol. Chem., 2008, 283(17): 11477-11484

20. VanEngelenburg, S.B. and Palmer, A.E., Fluorescent sensors of protein function, Current Opinion Chemical Biol., 2008, 12(1): 60-65

19. Palmer, A.E. and Tsien, R. Y. Measuring Calcium Signaling Using Genetically Targetable Fluorescent Indicators, Nature Protocols, 2006, 1(2): 1-9

18. Palmer A, E., Giacomello, M., Kortemme, T., Hires, S. A., Lev-Ram, V., Baker, D., Tsien R. Y., Ca2+ indicators based on computationally-redesigned calmodulin-peptide pairs, Chemistry and Biology, 2006, 13: 521-530

17. Duman, J. G., Chen, L., Palmer A. E., Hille, B., Contributions of intracellular compartments to calcium dynamics: Implicating an acidic store, Traffic, 2006, 7: 859-872

16. Qunitanar, L. Yoon, J., Aznar, C.P., Palmer, A. E., Andersson, K. K., Britt, R. D., Solomon, E. I. Spectroscopic and electronic structure studies of the trinuclear Cu cluster active site of the multicopper oxidase laccase: nature of its coordination unsaturation, J. Am. Chem. Soc., 2005, 127(40):13832-13845

15. Palmer, A. E., Jin, C, Reed, J. C., Tsien, R. Y., Bcl-2 mediated alterations in endoplasmic reticulum Ca2+analyzed with an improved genetically encoded fluorescent sensor, Proc. Natl. Acad. Sci., 2004, 101:50, 17404-17409 * This work was highlighted in BioTechniques, 2005, 38:1, p1 and Nature Reviews Molecular Cell Biology, 2005, 6, p92

14. Shaner, N.C., Campbell, R.E., Steinbach, P.A., Giepmans, B.N.G., Palmer, A.E., Tsien, R.Y. Improved monomeric red, orange, and yellow fluorescent proteins derived from Discoma red fluorescent protein, Nat. Biotechnol., 2004, 22, 1567-1572

13. Andersson, K.K., Schmidt, P.P., Katterle, B., Strand, K., Palmer, A.E., Lee, S.-K., Solomon, E.I., Graslund, A., Barra, A.-L. Examples of high frequency EPR studies in bioinorganic chemistry, J. Biol. Inorg. Chem., 2003, 8, 235-247

12. Palmer, A.E., Szilagyi, R.K., Cherry, J.R., Jones, A., Xu, F., Solomon, E.I. Spectroscopic characterization of the Leu513His variant of fungal laccase: effect of increased axial ligand interaction on the geometric and electronic structure of the Type 1 Cu site Inorg. Chem., 2003, 42, 4006-4017

11. Campbell, R.E., Tour, O., Palmer, A.E., Steinbach, P.A., Baird, G. S., Zacharias, D.A., Tsien, R.Y. A Monomeric Red Fluorescent Protein Proc. Natl. Acad. Sci., 2002, 99, 7877-7882

10. Palmer, A.E., Quintanar, L., Severance, S., Wang, T.-P., Kosman, D. J., and Solomon, E.I. Spectroscopic characterization and O2 reactivity of the trinuclear Cu cluster of mutants of the multicopper oxidase Fet3p, Biochem., 2002, 41, 6438-6448

9. Palmer, A.E., Lee, S.K., Solomon E. I. Decay of the Peroxide Intermediate in Laccase: Reductive Cleavage of the O-O Bond. J. Am. Chem. Soc. 2001, 123, 6591-6599

8. Solomon, E.I., Chen, P., Lee, S.K., Metz, M., Palmer, A.E., Oxygen binding, activation, and reduction to water by Cu proteins, Angew. Chemie Int. Ed., 2001, 40:24, 4570-4590

7. Machonkin, T.E., Quintanar, L., Palmer, A.E., Hassett, R.F., Severance, S., Kosman, D.J., Solomon, E.I. Spectroscopic Characterization of FET3p, a new member of the multicopper oxidase family. J. Am. Chem. Soc., 2001, 123, 5507-5517

6. Palmer, A.E., Randall, D.W., Xu, F., Solomon, E.I. Spectroscopic studies and electronic structure description of the high potential type 1 copper site in fungal laccase: Insight into the effect of the axial ligand. J. Am. Chem. Soc. 1999, 121, 7138-7149

5. Xu, F., Palmer, A.E., Yaver, D.S., Berka, R.M., Gambetta, G.A., Brown, S.H., Solomon, E.I. Targeted Mutations in aTrametes villosa laccase: axial perturbations of the T1 copper. J. Biol.Chem. 1999, 274, 12372-12375

4. Wilcox, D.E., Bennett, L.L., Cox, E.H., Haleblian, G., Hill, B.T., Kowack, E.P., Liu, X., Merkel, J.S., Palmer, A.E., Posewitz, M.C., Roy, J.F., Wetterhahn, K.E. Interaction of Metallothionein with Carcinogenic Metals Ni(II), Cr(VI), and As(III). In: Metallothionein IV. Ed: Klassen, C.D. 1999, Birkhauser: Basel, p 585-594

3. Solomon, E.I., Palmer, A.E., Sundaram, U.M., Machonkin, T.E. Spectroscopic Studies of O2 Intermediates in Copper Proteins: Electronic Structure Contributions to Function in Bioinorganic Chemistry. In: Spectroscopic Methods in Bioinorganic Chemistry. Eds: Solomon, E.I. and Hodgson, K.O. 1998, ACS: Washington, D.C., p 423-452

2. Xu, F., Berka, R.M., Wahleithner, J.A., Nelson, B.A., Shuster, J.R., Brown, S.H., Palmer, A.E., Solomon, E.I. Site directed mutations in fungal laccase: effect on redox potential, activity, and pH profile. Biochemical J. 1998, 334, 63-70

1. Bobilya, D. J., D’Amour, K., Palmer, A., Skeffington, C., Therrien, N., Tibaduiza, E. C. Isolation and cultivation of porcine brain capillary endothelial cells as an in vitro model of the blood-brain barrier. Methods in Cell Science 1995, 17, 25-32