Publications

Nolan Group

Krutzik P.O., Hale M.B. and Nolan G.P. Characterization of the murine immunological signaling network with phosphospecific flow cytometry. J Immunol. 2005 Aug 15; 175(4): 2366-73.
Krutzik P.O., Clutter M.R. Nolan G.P. Coordinate analysis of murine immune cell surface markers and intracellular phosphoproteins by flow cytometry. J Immunol. 2005 Aug 15; 175(4): 2357-65.
Perez O.D., Mitchell D., Gao G., Li L., Campos R. and Nolan GP. Multiparameter analysis of intracellular phosphoepitopes in immunophenotyped cell populations by flow cytometry.
Current Protocols in Cytometry. 2005 Aug;6(20):1-22.
Sachs K, Perez O, Pe'er D, Lauffenburger DA, Nolan GP. Causal protein-signaling networks derived from multiparameter single-cell data.
Science. 2005 Apr 22;308(5721):523-9.
Irish JM, Hovland R, Krutzik PO, Perez OD, Bruserud O, Gjertsen BT, Nolan GP. Single cell profiling of potentiated phospho-protein networks in cancer cells.
Cell. 2004 Jul 23;118(2):217-28.
Omar D. Perez, Dennis Mitchell, Gina C Jager, and Garry P Nolan. LFA-1 signaling through p44/42 is coupled to perforin degranulation in CD65+CD8+ natural killer cells. Blood First Edition Paper, prepublished online April 27, 2004; DOI 10.1182/blood-2003-08-2652
Krutzik P.O., Irish J., Nolan G.P. and Perez O.D. Analysis of Phospho-Proteins by Flow Cytometry: Techniques and Clinical Applications. Clin Immunol. Mar 2004;110(3):206-21.
Perez O.D., Krutzik P.O., and Nolan G.P. Flow Cytometric Analysis of Kinase Signaling Cascades. Methods Mol Biol. 2004;263:67-94.
Perez, O.D and Nolan G.P. Advancements in single-cell phospho-proteomics. Cellular Dynamics Newsletter, BD Biosciences. 2004
Perez OD, Mitchelld, Jager GC, South S., Murriel C, McBride J., Herzenberg, L.A., Kinoshita S, Nolan GP. Leokocyte functional antigen 1 lowers T cell activation thresholds and signaling through cytohesin-1 and Jun-activating binding protein 1. Nat Immunol. 2003 Nov; 4(11):1083-92.
Krutzik P.O. and Nolan G.P. (2003). Intracellular phospho-protein staining techniques for flow cytometry: monitoring single cell signaling events. Cytometry Oct;55A(2):61-70.
Perez, O.D, Kinoshita S, Hitoshi Y, Payan DG, Kitamura T, Nolan G.P, Lorens JB. Activation of the PKB/AKT pathway by ICAM-2. Immunity. 2002 Jan:16(1):51-65.
Perez OD and Nolan G.P. Simultaneous measurement of multiple active kinase states using polychromatic flow cytometry. Nat Biotechnol. 2002 Feb:20(2):155-62
Herzenberg, L.A., Parks D., Sahaf B., Perez O, Roederea M. and Herzenberg L.A. The history and future of the Fluorescence Activated Cell Sorter and Flow Cytometry: A View from Stanford Clinical Chemistry 2002 1819-1827.

Utz-Santiago Groups

Graham KL, Robinson WH, Steinman L, Utz PJ. High-throughput methods for measuring autoantibodies in systemic lupus erythematosus and other autoimmune diseases. Autoimmunity. 2004 Jun;37(4):269-72. Review.
Chan SM, Ermann J, Su L, Fathman CG, Utz PJ. Protein microarrays for multiplex analysis of signal transduction pathways. Nat Med. 2004 Dec;10(12):1390-6. Epub 2004 Nov 21.
Hueber W, Zeng D, Strober S, Utz PJ. Interferon-alpha-inducible proteins are novel autoantigens in murine lupus. Arthritis Rheum. 2004 Oct;50(10):3239-49.
Hueber W., Utz PJ., Robinson WH. Autoantibodies in early arthritis: advances in diagnosis and prognostication. Clin Exp Rheumatol. 2003 Sep-Oct:21(5 Suppl 31):S59-64.
Robinson WH, Utz PJ, Steinman L. Genomic and proteomics analysis of multiple sclerosis. Curr Opin Immunol. 2003 Dec:15(6):660-7.
Robinson WH, Steinman L., Utz PJ. Protein arrays for autoantibody profiling and fine-specificity mapping. Proteomics. 2003 Nov:3(11):2077-84.

Robinson-Steinman Groups

Neuman de Vegvar HE, Robinson WH. Microarray profiling of antiviral antibodies for the development of diagnostics, vaccines, and therapeutics. Clin Immunol. 2004 May;111(2):196-201. Review.
Utz PJ, Genovese MC, Robinson WH. Unlocking the "PAD" lock on rheumatoid arthritis. Ann Rheum Dis. 2004 Apr;63(4):330-2. No abstract available.
Neuman de Vegvar HE, Amara RR, Steinman L, Utz PJ, Robinson HL, Robinson WH. Microarray profiling of antibody responses against simian-human immunodeficiency virus: postchallenge convergence of reactivities independent of host histocompatibility type and vaccine regimen. J Virol. 2003 Oct:77(20):11125-38.
Robinson WH, Steinman L. Utz PJ. Protein and peptide array analysis of autoimmune disease. Biotechniques. 2002 Dec:Suppl:66-9
Hueber W, Utz PJ, Steinman L, Robinson WH. Autoantibody profiling for the study and treatment of autoimmune disease. Arthritis Res. 2002 Dec:Suppl:66-9

Chu-Tibshirani Groups

Storey JD, Tibshirani R. Statistical significance for genomewide studies. Proc Natl Acad Sci USA 2003 Aug 5:100(16):9440-5.
Stoery JD, Tibshirani R. Statistical methods for identifying differentially expressed genes in DNA microarrays. Methods Mol Biol. 2003:224:149-57.
Tibshirani R, Hastie T, Narasimhan B, Chu G. Diagnosis of multiple cancer types by shrunken centroids of gene expression. Proc Natl Acad Sci USA 2002 May 14:99(10):6567-72.