John Nolan, Ph.D. 
 Professor
La Jolla Bioengineering Institute
La Jolla, CA
email

 [Nolan Lab]

 

 

 

 

EDUCATION

1992

Ph.D. 

 The Pennsylvania State University
University Park, PA 		Biochemistry
1987 B.S. University of Illinois
Urbana, IL 		Biology, Chemistry

EXPERIENCE 

2003-Present

Professor, La Jolla Bioengineering Institute, La Jolla, CA

2001-2004

Director, National Flow Cytometry Resource, Bioscience Division, Los Alamos National Laboratory

2002-2004

Member, Cancer Research and Training Center, School of Medicine, University of New Mexico

1999-2004

Adjunct Professor, Department of Pathology, School of Medicine, University of New Mexico 
1996-2004 Technical Staff Member, Bioscience Division, Los Alamos National Laboratory
1993-1996 Postdoctoral Researcher, Life Sciences Division, Los Alamos National Laboratory

1992-1993

Postdoctoral Researcher, Dept. of Chemical Engineering, The Pennsylvania State University
1987-1992 Graduate Research Assistant, Dept. of Molecular and Cell Biology, The Pennsylvania State University

HONORS AND MEMBERSHIPS  

2008-2010

Chair, Standards Committee: International Society for the Advancement of Cytometry

2006, 2008, 2010

Organizing Committee: ISAC International Congress

2007-present

Editorial Board: Cytometry
2006

Fellow, American Institute for Medical and Biological Engineering

2002-2006

Councilor, International Society for Analytical Cytology 

2002 

Los Alamos Outstanding Mentor Award 

1999

Los Alamos Distinguished Performance Award

1996

Presidential Award for Excellence, International Society for Analytical Cytology

PUBLICATIONS

75.   Naivar M., M.E. Wilder, R.C. Habbersett, D.S. Sebba, J.P. Nolan, S.W. Graves (2009) Development of small and inexpensive digital data acquisition systems using a microcontroller based approach. Cytometry 75:979-89.

74.   Sebba, D.S., D.A. Watson, J.P. Nolan (2009) High throughput single nanoparticle spectroscopy. ACS Nano 3:1477-1484.

73.   Chen, J., J. Zhou, C.K. Sanders, J.P. Nolan and H. Cai (2009) A surface display yeast two hybrid screening system for high throughput protein interactome mapping. Analytical Biochemistry 390:29-37.

72.   Watson, D.A., D.F. Gaskill, L.O. Brown, S.K. Doorn, J.P. Nolan (2009) Spectral measurements of large particles by flow cytometry. Cytometry 75:460-4.

71.   Lee, J.A., J. Spidlen, S. Atwater, K. Boyce, J. Cai, N.Crosbie, M. Dalphin, J. Furlong, M. Gasparetto, M. Goldberg, B. Hyun, K. Jansen, T. Kollmann, M. Kong, D. Lary, R. Leif, S. McWeeney, T.D. Moloshok, W. Moore, G. Nolan, J.P. Nolan, J. Nikolich-Zugich, D. Parrish, J. Price, B. Purcell, Y. Qian, B. Selvaraj, M. Simmerson, C. Smith, O. Tchuvatkina, P. Wilkinson, A. Wertheimer, C. Wilson, R.H. Scheuermann, and R. R. Brinkman (2008) MIFlowCyt: The Minimum Information about a Flow Cytometry Experiment. Cytometry A 73: 926-30.

70.   Chen, J., J. Zhou, W. Bae, C.K. Sanders, J.P. Nolan and H. Cai (2008) A yEGFP-based reporter system for high throughput flow cytometric yeast two-hybrid screening. Cytometry 73A:312-320.

69.   Watson, D.A., D.F. Gaskill, L.O. Brown, M.A. Naivar, S.W. Graves, S.K. Doorn, and J.P. Nolan (2008) A flow cytometer for the measurement of Raman spectra. Cytometry 73A:119-128.

68.   Deshpande, A., C.M. Wheeler,  W.C. Hunt, C.L. Peyton, P.S. White, Y.E. Valdez and J.P. Nolan (2008) Variation in HLA Class I antigen processing genes and susceptibility to HPV16-associated cervical cancer. Journal of Infectious Disease 197:371-381.

67.   Naivar, M.A., J.D. Parson, M.E. Wilder, R.C. Habbersett, B.S. Edwards, S.W. Graves, J.P. Nolan, J.C. Martin, J.H. Jett, J.J. Trujillo, T.A. Woods, C.K. Sanders, J.P. Freyer (2007) Open, reconfigurable cytometric acquisition system: ORCAS. Cytometry 71A:915-924.

66.   Nolan, J.P. and L. Yang (2007) The flow of cytometry into systems biology. Briefings in Functional Genomics and Proteomics 6: 81-90.

65.   Yang, L., and J.P. Nolan (2007) High throughput screening and characterization of phage display libraries using microsphere arrays. Cytometry 71A: 625-631.

64.   van der Heyde, H.C., W.P. Weidanz, J.M. Burns, I. Gramaglia, J.P. Nolan (2007) Analysis of antigen-specific antibodies and their isotypes in experimental malaria. Cytometry A 71A:242-250.

63.   Gramaglia I., P. Sobelewski, D. Maeys, R. Contreras, J.P. Nolan, J. A. Frangos, M. Intaglietta, H. C. van der Heyde (2006) Low nitric oxide bioavailability contributes to the genesis of experimental cerebral malaria. Nature Medicine 12: 1417-1422.

62.   van der Heyde, H.C., J.P. Nolan, V. Combes, I. Gramaglia, and G.E. Grau (2006) A unified hypothesis for the genesis of cerebral malaria: sequestration, inflammation, plus hemostasis leading to microcirculatory dysfunction. Trends in Parisitology 22:503-508.

61.   Nolan, J.P. (2006) High throughput and high resolution molecular analysis using flow cytometry. Reviews in Fluorescence 2006, pp 195-212.

60.   Goddard, G., J. C. Martin, M. Naivar, P. M. Goodwin, S. W. Graves, R.C. Habbersett, J.P. Nolan, J. H. Jett (2006) Spectral analysis flow cytometer: Modular inclusion of high resolution spectral analysis. Cytometry 69A: 842-851.

59.   Nolan, J.P., L. Yang, H.C. van der Heyde (2006) Reagents and instruments and for multiplexed analysis using microparticles. Current Protocols in Cytometry 13.8.

58.   Saunders, M. J.,  H. Kim H, T. A. Woods, J.P. Nolan, L. A. Sklar, B. S. Edwards, S. W. Graves (2006) Microsphere-based protease assays and screening application for lethal factor and factor Xa. Cytometry 69A:342-352.

57.   Nolan, J.P., Mandy F. (2006) Multiplexed and microparticle-based analyses: Quantitative tools for the large-scale analysis of biological systems. Cytometry 69A:318-325.

56.   Yan X., W. Zhong, A. Tang, E.G. Schielke, W. Hang, J.P. Nolan (2005) Multiplexed flow cytometric immunoassay for influenza virus detection and differentiation. Analytical Chemistry 77: 7673-7678.

55.   Graves, S.W., J.P. Nolan, L.A. Sklar (2005) Molecular assembly analysis using flow cytometry. In Flow Cytometry for Biotechnology (LA Sklar, ed) Oxford University Press.

54.   Nolan J.P., A. Deshpande, F. Zhou (2005) Genetic Analysis Using Microsphere Arrays. In Flow Cytometry for Biotechnology (LA Sklar, ed) Oxford University Press.

53.   Deshpande, A., Y.E. Valdez, J.P. Nolan (2005) SNP genotyping using single base extension and flow cytometry. Current Protocols in Cytometry 13.4.

52.   Woods, T.A., S.W. Graves, J.P. Nolan (2005) Protein surface concentration measurements using flow cytometry. Current Protocols in Cytometry 13.2.

51.   Gramaglia I., H. Sahlin, J.P. Nolan, J. A. Frangos, M. Intaglietta, H. C. van der Heyde (2005) Cell- rather than antibody-mediated immunity leads to the development of profound thrombocytopenia during experimental Plasmodium berghei malaria. Journal of Immunology 175: 7699-7707.

50.   Yan, X., R.C. Habbersett, J.P. Nolan, T.M. Yoshida, J.H. Jett, B.L. Marrone (2005) Probing the kinetics of SYTOX Orange and PicoGreen stains binding to double-stranded DNA with implications for DNA analysis. Analytical Chemistry 77:3554-3562.

49.   Graves S.W., T.A. Woods, J.P. Nolan (2005) Microsphere surface protein concentration determination using ATTO-Tag CBQCA. Cytometry 65A: 50-58.

48.   Deshpande, A., J.P. Nolan†, P.S. White, Y.E. Valdez, C.L. Peyton, W.C. Hunt, C.M. Wheeler (2005) TNF alpha promoter polymorphisms and susceptibility to HPV16-associated cervical cancer. Journal of Infectious Disease 191:969-976. †Corresponding author.

47.   Gerena, Y., J.P. Nolan, L. Wang, A. Schwartz, E. Fernandez-Repollet (2004) Quantification of EGFP expression on Molt-4 cells using calibration standards. Cytometry 60B:21-28.

46.   Yan, X., E.G. Schielke, K.M. Grace, C. Hassell, B.L. Marrone, J.P. Nolan (2004) Microsphere-based duplexed immunoassay for influenza virus typing by flow cytometry. Journal of Immunological Methods 284:27-38.

45.   Cleland C.A., P.S. White, A. Deshpande, M. Wolinsky, J. Song, J.P. Nolan (2004) Rational design of nucleic acid signatures for the detection, identification, and characterization of microbial pathogens. Expert Reviews in Molecular Diagnostics 4: 89-101.

44.   Nolan, R.L., H. Cai, J.P. Nolan, J.P., PM Goodwin (2003) A simple quenching method for fluorescence background reduction and its application to the direct, quantitative detection of specific mRNA. Analytical Chemistry 75: 6236-6243.

43.   Kraus, R.H., M.A. Espy, A.N. Matlachov, T.J. Matsson, C. Carr, J.C. Martin, J.P. Nolan, S. Graves, A.C. Bergstrom, M.D. Ward, P. Grodzinski (2003) Bioassay with magnetic particles in flow: a method for highly parallel molecular separations of complex biological systems. EUCAS 2003 Proceedings.

42.   Kaderali, L., A. Deshpande, J.P. Nolan, P.S. White (2003) Primer design for multiplexed genotyping. Nucleic Acids Research 31: 1796-1802.

41.   Nolan J.P., White PS (2002) Biosensor platforms and assays.  Proceedings of BTR 2002: Unified Science & Technology for Reducing Biological Threats & Countering Terrorism. 

40.   Green, L.D. , H.Cai, D.C. Torney, D.J. Wood, F.J. Uribe-Romeo, L. Kaderali, J.P. Nolan, P.S. White (2002) High-throughput SNP Scoring with GAMMArrays:  Genomic Analysis using Multiplexed Microsphere Arrays.  In Biomedical Nanotechnology Architectures and Applications (Eds. D. J. Bornhop; D.A. Dunn; R.P. Mariella; C. J. Murphy; D. V. Nicolau; S. Nie; M. Palmer; R. Raghavachari) Proc. SPIE Vol. 4626, p. 308-315.

39.   Lauer, S., J.P. Nolan (2002) Development and characterization of Ni-NTA microspheres. Cytometry 48:136-145.

38.   Graves, S.W., R.C. Habbersett, J.P. Nolan (2002) Dynamic temperature control of the sample in flow cytometry. Current Protocols in Cytometry 1.18

37.   Sklar, L.A., B. Edwards, S.W. Graves, J.P. Nolan, E. Prossnitz (2002) Flow cytometric analysis of ligand-receptor interactions and molecular assemblies. Annual Review of Biophysics and Biomolecular Structure 31:97-119.

36.   Lauer, S., B. Goldstein, R. Nolan, J.P. Nolan (2002) Analysis of cholera toxin-ganglioside interactions by flow cytometry. Biochemistry 41:1742-1751.

35.   Nolan, J.P., L.A. Sklar (2002) Suspension array technology: Evolution of the flat array paradigm. Trends in Biotechnology 20:9-12.

34.   Graves, S.W., J.P. Nolan, J.H. Jett, J.C. Martin, L.A. Sklar (2002) Effects of nozzle design on rapid delivery in flow cytometry. Cytometry 47:127-137.

33.   Nolan, J.P., P.S. White, H. Cai (2002) SNP scoring for drug discovery applications.  In, Integrated Drug Discovery Technologies (H.-Y. Mei and A. Czarnik, eds), pp 149-166, Marcel Dekker, New York.

32.   Jett, J.H,  H. Cai, R.C. Habbersett, R.A. Keller, E.J. Larson, B.L. Marrone, J.P. Nolan, X. Song, B. Swanson, P.S. White (2001) Flow cytometry analysis techniques for high-throughput biodefense research.  In: Firepower in the Lab: Automation in the Fight Against Infectious Diseases and Bioterrorism.  (Layne SP, Beugelsdijk TJ, Patel CKN, eds).  Washington, DC: Joseph Henry Press, 193 - 201.

31.   Song, X., J. Shi, J.P. Nolan, B. Swanson (2001) Detection of multivalent interactions through two-tiered energy transfer.  Analytical Biochemistry 291:133-141.

30.   Nolan J.P., Mandy F. (2001) Suspension array technology: New tools for gene and protein analysis. Cellular and Molecular Biology 47:1241-1256.

29.   Graves, S.W., R.C. Habbersett, J.P. Nolan (2001) A dynamic inline sample thermoregulation unit for flow cytometry. Cytometry 43:23-30.

28.   Yan, X, R.C. Habbersett, J.M. Cordek, J.P. Nolan, T.M. Yoshida, J.H. Jett, B.L. Marrone (2000) Development of a mechanism-based, DNA staining protocol using SYTOX Orange nucleic acid stain and DNA fragment sizing flow cytometry. Analytical Biochemistry 286, 138–148.g

27.   Cai, H., P.S. White, D.C. Torney, A. Deshpande, Z. Wang, R.A. Keller, B. Marrone, J.P. Nolan (2000) Flow cytometry based minisequencing: a new platform for high throughput single nucleotide polymorphism analysis. Genomics 66:135-143.

26.   Nolan, J.P., S. Lauer, E.R. Prossnitz, L.A. Sklar (1999) Flow cytometry: a versatile tool for all stages of drug discovery. Drug Discovery Today 4:173-180.

25.   Gary, R., M.S. Park, J.P. Nolan, H.L. Cornelius, O.G. Korzyreva, H.P. Tran, K.S. Lobachev, M.A. Resnick, D.A. Gordenin (1999) A novel role in DNA metabolism for binding of Fen1/Rad27 to PCNA-and implications for genetic risk. Molecular and Cell Biology 19:5373-5382.

24.   Ambrose, W.P., P.M. Goodwin, J.P. Nolan (1999) Single molecule detection with total internal reflection excitation: comparing signal to background and total signal in different geometries.  Cytometry 36:224-231.

23.   Buranda, T., G. Jones, J.P. Nolan, J. Keij, G.P. Lopez, L.A. Sklar (1999) Ligand-receptor dynamics at streptavidin coated particle surfaces: a flow cytometric and spectrofluorometric study.  Journal of Physical Chemistry B 103:3399-3410.

22.   Frank, G, J. Qui, M. Somsouk, Y. Weng, L. Somsouk, J.P. Nolan, B. Shen (1998) Partial functional deficiency of E160D flap endonuclease-1 mutant in vitro and in vivo is due to defective cleavage of DNA substrates. Journal of Biological Chemistry 273:33064-33072.

21.   Nolan, J.P., J.D. Chambers, L.A. Sklar (1998) Cytometric approaches to the study of receptors. In, Cytometric Cellular Analysis, Vol. 1. Phagocyte Function: A Guide for Research and Clinical Evaluation (Eds. J.P. Robinson and G. Babcock), pp 19-46. John Wiley and Sons, New York.

20.   Song, X., J.P. Nolan, B. Swanson (1998) An optical biosensor based on fluorescence self-quenching and energy transfer: Ultrasensitive and specific detection of protein toxins.  Journal of the American Chemical Society 120:11514-11515.

19.   Song, X., J.P. Nolan, B Swanson (1998) Optical signal transduction triggered by protein-ligand binding: Detection of toxins using multivalent receptors. Journal of the American Chemical Society 120:4873-4874.

18.   Gudi S.R.P., J.P. Nolan, J.A. Frangos (1998) Modulation of GTPase activity of G proteins by fluid shear stress and phospholipid composition. Proceedings of the National Academy of Sciences 95: 2515-2519. 

17.   Sklar L.A., L.C. Seamer, F. Kuckuck, R.G. Posner, E. Prossnitz, B. Edwards, J.P. Nolan (1998) Sample handling for molecular assembly in flow cytometry. In, Advances in Optical Biophysics (Eds. J.R. Lakowicz and J.B.A. Ross) Proceedings SPIE 3256:144-153.

16.   Nolan, J.P., L.A. Sklar (1998) The emergence of flow cytometry for sensitive, real-time measurements of molecular interactions.  Nature Biotechnology 16:633-638.

15.   Cai H., K. Kommander, P.S. White, R. Keller, J.P. Nolan (1998) Flow Cytometry-Based Hybridization and Polymorphism Detection and Analysis. In, Advances in Optical Biophysics (Eds. J.R. Lakowicz and J.B.A. Ross) Proceedings SPIE 3256:171-177.

14.   Nolan, J.P., H. Cai, K. Kommander, B. Lehnert, R. Nolan, M. Park, T. Ruscetti, B. Shen, L.A. Sklar (1998) Real-Time Analysis of Molecular Assembly by Kinetic Flow Cytometry.  In Advances in Optical Biophysics. (Eds. J.R. Lakowicz and J.B.A. Ross) Proceedings SPIE 3256:114-121.

13.   Shen B., J.P. Nolan, L.A. Sklar, M.S. Park (1997) Functional analysis of point mutations in human flap endonuclease-1 active site. Nucleic Acids Research 25:3332-3338.

12.   Nolan, J.P., R.H. Hammerstedt (1997) Regulation of membrane stability and the acrosome reaction in mammalian sperm. FASEB Journal 11:670-682.

11.   Roslaniec, M.C., C.S. Bell-Prince, H.A. Crissman, J.J. Fawcett, P.M. Goodwin, R. Habbersett, J.H. Jett, R.A. Keller, J.C. Martin, B.L. Marrone, J.P. Nolan, M.S. Park, B.L. Sailer, L.A.Sklar, J.A. Steinkamp, L.S. Cram (1997) New flow cytometric technologies for the 21st century. Human Cell 10:3-10.

10.   Robbins D.L., J.P. Nolan, J.H. Jett, L.A. Sklar, R.A. Keller (1997) Analysis of individual lipoproteins and liposomes. Proceedings SPIE 2985:213-222.

9.  Nolan, J.P., Shen, B., M.S. Park, L.A. Sklar (1996) Kinetic analysis of human flap endonuclease-1 by flow cytometry. Biochemistry 35:11668-11676.

8.  Shen, B., J.P. Nolan, L.A. Sklar, M.S. Park (1996) Essential amino acids for substrate binding and catalysis of human flap endonuclease-1. Journal of Biological Chemistry 271:9173-9176.

7.  Nolan, J.P., R.G. Posner, R. Habbersett, J.C. Martin, L.A. Sklar (1995) A rapid mix flow cytometer with subsecond kinetic resolution. Cytometry 21:223-229.

6.  Andrews, J.C., J.P. Nolan, R.H. Hammerstedt, B.D. Bavister (1995) Characterization of N-(6-methoxy-8-quinolyl)-p-toluenesulfonamide for the detection of zinc in hamster sperm. Cytometry 21:153-159.

5.  Nolan, J.P., S.F. Magargee, R.G. Posner, R.H. Hammerstedt (1995) Flow cytometric analysis of transmembrane phospholipid movement in bull sperm. Biochemistry 34: 3907-3915.

4.  Andrews, J.C., J.P. Nolan, R.H. Hammerstedt, B.D. Bavister (1994) Role of zinc during hamster sperm capacitation. Biology of Reproduction 51: 1238-1247.

3.  Nolan, J.P., J.K. Graham, R.H. Hammerstedt (1992) Artificial induction of exocytosis in bull sperm. Archives of Biochemistry and Biophysics 292: 311-322.

2.  Graham, J.K., J.P. Nolan, R.H. Hammerstedt (1991) Effect of dilauroyl-phosphatidylcholine liposomes on motility, induction of the acrosome reaction, and subsequent egg penetration by epididymal ram sperm. Biology of Reproduction 44: 1092-1099.

1.  Hammerstedt, R.H., J.K. Graham J.P. Nolan (1990) Cryopreservation of mammalian sperm: what we ask them to survive. Journal of Andrology 11: 73-88.

PATENTS

  1. Nolan JP, White PS, Cai H (2001) DNA polymorphism identity determination using flow cytometry. USPTO# 6,287,766

  2. Nolan JP, Nolan RL, Ruscetti T, Lehnert BE (2002) Recombinant fluorescent protein microsphere calibration standard USPTO# 6,326,157

  3. Nolan JP, White SW (2006) DNA polymorphism identity determination using multiplexed oligonucleotide PCR. USPTO# 7,153,656

  4. Nolan JP, Zhou F (2007) Early leukemia diagnostics using microsphere arrays. USPTO# 7,179,598

  5. Kraus RH, Zhou F, Nolan JP (2007) Bioassay and biomolecular identification, sorting, and collection methods using magnetic microspheres. USPTO# 7,232,691

  6. Sebba DS, Nolan JP (2009) Raman scattering tags for biological sensing (provisional).

 

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