Research Topics
Genomes and Genes | Garry P NolanSummaryAffiliation: Stanford University Country: USA Publications
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Publications
Flow cytometry in the post fluorescence eraGarry P Nolan
Stanford University School of Medicine, CA 94305, USA
Best Pract Res Clin Haematol 24:505-8. 2011....- Single-cell mass cytometry adapted to measurements of the cell cycleGregory K Behbehani
Baxter Laboratory for Stem Cell Biology, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cytometry A 81:552-66. 2012..We applied this to map the cell cycle phases of cells spanning the hematopoietic hierarchy in healthy human bone marrow as a prelude to later studies with cancers and other disorders of this lineage... 
Tyramide signal amplification for analysis of kinase activity by intracellular flow cytometryMatthew R Clutter
Department of Microbiology and Immunology, Baxter Laboratory for Stem Cell Biology, Stanford University School of Medicine, Stanford, California, USA
Cytometry A 77:1020-31. 2010..We anticipate the approach will be broadly applicable to intracellular flow cytometry assays with low signal-to-noise ratios...
Single cell profiling of potentiated phospho-protein networks in cancer cellsJonathan M Irish
Department of Microbiology and Immunology, Baxter Laboratory of Genetic Pharmacology, Stanford University, Stanford, CA 94305, USA
Cell 118:217-28. 2004..Thus, single cell measurements of phospho-protein responses reveal shifts in signaling potential of a phospho-protein network, allowing for categorizing of cell network phenotypes by multidimensional molecular profiles of signaling...- Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuumSean C Bendall
Baxter Laboratory in Stem Cell Biology, Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA
Science 332:687-96. 2011..Collectively, such single-cell analyses provide system-wide views of immune signaling in healthy human hematopoiesis, against which drug action and disease can be compared for mechanistic studies and pharmacologic intervention... - Alternate mechanisms of initial pattern recognition drive differential immune responses to related poxvirusesWilliam E O'Gorman
Department of Microbiology and Immunology, Baxter Lab in Genetic Pharmacology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cell Host Microbe 8:174-85. 2010..These data link early immune signaling events to infection outcome and suggest that activation of different pattern-recognition receptors early after infection may be important in determining vaccine efficacy... - Characterization of the murine immunological signaling network with phosphospecific flow cytometryPeter O Krutzik
Department of Microbiology and Immunology, Baxter Laboratory of Genetic Pharmacology, Stanford University, Stanford, CA 94305, USA
J Immunol 175:2366-73. 2005..Thus, simultaneous analysis of the three tiers of the immune system network illustrates the principles by which immune regulation is context dependent and how in vitro culture systems compare with the in vivo environment... - Kinetics of B cell receptor signaling in human B cell subsets mapped by phosphospecific flow cytometryJonathan M Irish
Department of Medicine, Oncology Division, Stanford University, Stanford, CA 94305, USA
J Immunol 177:1581-9. 2006..These results provide the first kinetic maps of BCR signaling in primary human B cell subsets and enable new studies of signaling in B cell disorders, such as autoimmunity and cancer... - Differential role of ICAM ligands in determination of human memory T cell differentiationOmar D Perez
The Baxter Laboratory for Genetic Pharmacology, Stanford University School of Medicine, Stanford, CA 94305, USA
BMC Immunol 8:2. 2007..By applying a multivariate intracellular phospho-proteomic analysis, we demonstrate that LFA-1 differentially activates signaling molecules... - A platinum-based covalent viability reagent for single-cell mass cytometryHarris G Fienberg
Baxter Laboratory for Stem Cell Biology, Stanford University School of Medicine, Stanford, California, USA
Cytometry A 81:467-75. 2012..Cisplatin can therefore be used as a viability reagent for a wide range of mass cytometry protocols... - The initial phase of an immune response functions to activate regulatory T cellsWilliam E O'Gorman
Department of Microbiology and Immunology, Stanford University School of Medicine, CA 94305, USA
J Immunol 183:332-9. 2009..These results indicate that one of the earliest events in a T cell response is the activation of endogenous regulatory cells, potentially to prevent autoimmunity... - Multiparameter analysis of intracellular phosphoepitopes in immunophenotyped cell populations by flow cytometryOmar D Perez
Stanford University School of Medicine, Stanford, California, USA
Curr Protoc Cytom . 2005.... - Single-cell phospho-specific flow cytometric analysis demonstrates biochemical and functional heterogeneity in human hematopoietic stem and progenitor compartmentsKenneth D Gibbs
Program in Immunology, Stanford University School of Medicine, Stanford, CA, USA
Blood 117:4226-33. 2011.... - Leukocyte functional antigen 1 lowers T cell activation thresholds and signaling through cytohesin-1 and Jun-activating binding protein 1Omar D Perez
Department of Microbiology and Immunology, and The Baxter Laboratory of Genetic Pharmacology, Stanford University School of Medicine, Stanford, California 94305, USA
Nat Immunol 4:1083-92. 2003..LFA-1 stimulation lowered the threshold of T cell activation. Thus, LFA-1 signaling contributes to T cell activation and effects T cell differentiation... - Novel hematopoietic progenitor populations revealed by direct assessment of GATA1 protein expression and cMPL signaling eventsGarrett C Heffner
Program in Immunology, Ludwig Center at Stanford, Institute of Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, California, USA
Stem Cells 29:1774-82. 2011.... - Coordinate analysis of murine immune cell surface markers and intracellular phosphoproteins by flow cytometryPeter O Krutzik
Department of Microbiology and Immunology, Baxter Laboratory of Genetic Pharmacology, Stanford University, Stanford, CA 94305, USA
J Immunol 175:2357-65. 2005.... - B-cell signaling networks reveal a negative prognostic human lymphoma cell subset that emerges during tumor progressionJonathan M Irish
Department of Medicine, Oncology Division, Stanford University, Stanford, CA 94305, USA
Proc Natl Acad Sci U S A 107:12747-54. 2010..Both the existence of these LNP cells and their aberrant signaling profiles provide targets for new therapies for follicular lymphoma... - From single cells to deep phenotypes in cancerSean C Bendall
Baxter Laboratory for Stem Cell Biology, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
Nat Biotechnol 30:639-47. 2012.... - Decoupling of tumor-initiating activity from stable immunophenotype in HoxA9-Meis1-driven AMLKenneth D Gibbs
Baxter Laboratory in Stem Cell Biology, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cell Stem Cell 10:210-7. 2012..Moreover, this suggests that in certain malignancies tumor-initiation activity (or "cancer stemness") can represent a cellular state that exists independently of distinct immunophenotypic definition... - LFA-1 signaling through p44/42 is coupled to perforin degranulation in CD56+CD8+ natural killer cellsOmar D Perez
Baxter Laboratory for Genetic Pharmacology, Stanford University School of Medicine, Stanford, CA, USA
Blood 104:1083-93. 2004..These results identify novel, specific functional consequence of LFA-1-mediated cytolytic activity in perforin-containing human NK subsets... - Novel mutations in the inhibitory adaptor protein LNK drive JAK-STAT signaling in patients with myeloproliferative neoplasmsStephen T Oh
Division of Hematology, Department of Medicine, Stanford University School of Medicine, Stanford Cancer Center, 875 Blake Wilbur Dr, Stanford, CA 94305 5821, USA
Blood 116:988-92. 2010..These findings indicate that JAK-STAT activation due to loss of LNK negative feedback regulation is a novel mechanism of MPN pathogenesis... - Phospho-proteomic immune analysis by flow cytometry: from mechanism to translational medicine at the single-cell levelOmar D Perez
The Baxter Laboratory for Genetic Pharmacology, Department of Microbiology and Immunology, Stanford University, School of Medicine, Stanford, CA 94305, USA
Immunol Rev 210:208-28. 2006..Flow cytometry, as a platform that is well situated in both the research and clinical settings, can contribute to drug discovery as well as having utility for both biomarker and patient-stratification... - The T cell STAT signaling network is reprogrammed within hours of bacteremia via secondary signalsAndrew N Hotson
Department of Microbiology and Immunology, The Baxter Laboratory of Genetic Pharmacology, Stanford University School of Medicine, Stanford, CA 94305, USA
J Immunol 182:7558-68. 2009.... - Single-cell profiling identifies aberrant STAT5 activation in myeloid malignancies with specific clinical and biologic correlatesNikesh Kotecha
Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cancer Cell 14:335-43. 2008..This signature was a specific feature involving JAK-STAT signaling, suggesting a critical role of this pathway in the biological mechanism of this disorder and indicating potential targets for future therapies... - Stage dependent aberrant regulation of cytokine-STAT signaling in murine systemic lupus erythematosusMatthew B Hale
The Baxter Laboratory of Genetic Pharmacology, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, USA
PLoS ONE 4:e6756. 2009.... - Analysis of protein phosphorylation and cellular signaling events by flow cytometry: techniques and clinical applicationsPeter O Krutzik
Department of Molecular Pharmacology, School of Medicine, Stanford University, CA 94305, USA
Clin Immunol 110:206-21. 2004.... - Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8+ T cell phenotypesEvan W Newell
Department of Microbiology and Immunology, Stanford University, CA 94305, USA
Immunity 36:142-52. 2012..This large degree of functional diversity even between cells with the same specificity gives CD8(+) T cells a remarkable degree of flexibility in responding to pathogens... - Genomic and proteomic analysis reveals a threshold level of MYC required for tumor maintenanceCatherine M Shachaf
Department of Medicine and Pathology, Division of Medical Oncology, Stanford University School of Medicine, Stanford University, Stanford, California 94305, USA
Cancer Res 68:5132-42. 2008..Thus, at the MYC threshold, there is a loss of its ability to maintain tumorigenesis, with associated shifts in gene and protein expression that reestablish cell cycle checkpoints, halt protein translation, and promote apoptosis... - Activation of the PKB/AKT pathway by ICAM-2Omar D Perez
Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA
Immunity 16:51-65. 2002..These results attribute a novel signaling function to ICAM-2 that might suggest mechanisms by which ICAM-2 signals intracellular communication at various immunological synapses... - Treatment of autoimmune disease by adoptive cellular gene therapyIngo H Tarner
Department of Medicine, Division of Immunology and Rheumatology, Stanford University School of Medicine, Stanford, California 94305, USA
Ann N Y Acad Sci 998:512-9. 2003.... - Flow cytometric analysis of kinase signaling cascadesOmar D Perez
The Baxter Laboratory for Genetic Pharmacology, Department of Microbiologyand Immunology, Stanford University School of Medicine, Stanford, CA, USA
Methods Mol Biol 263:67-94. 2004.... - Luminescent imaging of beta-galactosidase activity in living subjects using sequential reporter-enzyme luminescenceThomas S Wehrman
Baxter Laboratory in Genetic Pharmacology, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California 94305, USA
Nat Methods 3:295-301. 2006..Thus, coupling the properties of FLuc to the advantages of beta-gal permits bioluminescent imaging applications that previously were not possible... - Conditional protein stabilization via the small molecules Shld-1 and rapamycin increases the signal-to-noise ratio with tet-inducible gene expressionGal Almogy
The Department of Microbiology and Immunology, Stanford University School of Medicine, Palo Alto, CA 94305, USA
Biotechniques 46:44-50. 2009..The results underscore how investigator-defined regulation at multiple levels of protein expression can attain afiner degree of control over the final expression of introduced genes... - A deep profiler's guide to cytometrySean C Bendall
Baxter Laboratory in Stem Cell Biology, Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA
Trends Immunol 33:323-32. 2012..Immunophenotyping by mass spectrometry provides the ability to measure >36 proteins at a rate of 1000 cells/s. We review these cytometric technologies, capable of high-content, high-throughput single-cell assays... - T-cell tropism and the role of ORF66 protein in pathogenesis of varicella-zoster virus infectionAnne Schaap
Department of Pediatrics, Stanford University School of Medicine, CA 94305 5208, USA
J Virol 79:12921-33. 2005..These observations suggest that the ORF66 kinase plays a unique role during infection of T cells and supports VZV T-cell tropism by contributing to immune evasion and enhancing survival of infected T cells... - Structural linkage between ligand discrimination and receptor activation by type I interferonsChristoph Thomas
Howard Hughes Medical Institute, Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cell 146:621-32. 2011.... - Electron microscopy localization and characterization of functionalized composite organic-inorganic SERS nanoparticles on leukemia cellsAi Leen Koh
Department of Materials Science and Engineering, Stanford University, Durand Building Room 139, 496 Lomita Mall, Stanford, CA 94305, USA
Ultramicroscopy 109:111-21. 2008.... - Phospho-specific flow cytometry: intersection of immunology and biochemistry at the single-cell levelMatthew B Hale
Stanford University, Department of Microbiology and Immunology, Baxter Laboratory of Genetic Pharmacology, 269 Campus Drive, Stanford, CA 94305, USA
Curr Opin Mol Ther 8:215-24. 2006.... - Transcending the biomarker mindset: deciphering disease mechanisms at the single cell levelErika A Danna
Stanford NHLBI Proteomics Center, Baxter Laboratory of Genetic Pharmacology, Department of Microbiology and Immunology, School of Medicine, Stanford University, 269 Campus Drive, CCSR 3205, Stanford, CA 94305, USA
Curr Opin Chem Biol 10:20-7. 2006..Phospho-specific flow cytometry provides a method for the analysis of pathological signaling networks, enabling the investigation of disease mechanisms at the single-cell level... - Global transcriptional response to interferon is a determinant of HCV treatment outcome and is modified by raceXiao Song He
Department of Medicine, Stanford University School of Medicine, Stanford, CA, USA
Hepatology 44:352-9. 2006.... - Learning signaling network structures with sparsely distributed dataKaren Sachs
Department of Microbiology and Immunology, Baxter Laboratory in Genetic Pharmacology, Stanford University School of Medicine, Stanford, CA, USA
J Comput Biol 16:201-12. 2009.... - Simultaneous measurement of multiple active kinase states using polychromatic flow cytometryOmar D Perez
Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305-5175, USA
Nat Biotechnol 20:155-62. 2002....