1. Shapiro HM. Practical flow cytometry. 2003. 4th ed. Hoboken, NJ: Wiley-Liss.
2. Henel G, Schmitz JL. Basic theory and clinical applications of flow cytometry. Lab Med. 2007; 38:428–436.
Article
3. Hayashi T, Shibata N, Okumura R, Kudome T, Nishimura O, Tarui H, Agata K. Single-cell gene profiling of planarian stem cells using fluorescent activated cell sorting and its "index sorting" function for stem cell research. Dev Growth Differ. 2010; 52:131–144. PMID:
20078655.
Article
4. Doležel J, Vrána J, Safář J, Bartoš J, Kubaláková M, Simková H. Chromosomes in the flow to simplify genome analysis. Funct Integr Genomics. 2012; 12:397–416. PMID:
22895700.
Article
5. Tighe P, Negm O, Todd I, Fairclough L. Utility, reliability and reproducibility of immunoassay multiplex kits. Methods. 2013; [Epub ahead of print].
Article
6. Ernst D, Bolton G, Recktenwald D, Cameron MJ, Danesh A, Persad D, Kelvin DJ, Gaur A. Tang YW, Stratton CW, editors. Bead-based flow cytometric assays: A multiplex assay platform with applications in diagnostic microbiology. Advanced techniques in diagnostic microbiology. 2006. New York, U.S.A.: Springer;p. 427–443.
Article
7. Morgan E, Varro R, Sepulveda H, Ember JA, Apgar J, Wilson J, Lowe L, Chen R, Shivraj L, Agadir A, Campos R, Ernst D, Gaur A. Cytometric bead array: a multiplexed assay platform with applications in various areas of biology. Clin Immunol. 2004; 110:252–266. PMID:
15047203.
Article
8. Funato Y, Baumhover H, Grantham-Wright D, Wilson J, Ernst D, Sepulveda H. Simultaneous measurement of six human cytokines using the Cytometric Bead Array System, a multiparameter immunoassay system for flow cytometry. Cytometry Res. 2002; 12:93–97.
9. Cook EB, Stahl JL, Lowe L, Chen R, Morgan E, Wilson J, Varro R, Chan A, Graziano FM, Barney NP. Simultaneous measurement of six cytokines in a single sample of human tears using microparticle-based flow cytometry: allergics vs. non-allergics. J Immunol Methods. 2001; 254:109–118. PMID:
11406157.
Article
10. Chattopadhyay PK, Roederer M. Cytometry: today's technology and tomorrow's horizons. Methods. 2012; 57:251–258. PMID:
22391486.
Article
11. Herzenberg LA, Parks D, Sahaf B, Perez O, Roederer M, Herzenberg LA. The history and future of the fluorescence activated cell sorter and flow cytometry: a view from Stanford. Clin Chem. 2002; 48:1819–1827. PMID:
12324512.
Article
12. Zhang P, Zhao N, Zeng Z, Chang CC, Zu Y. Combination of an aptamer probe to CD4 and antibodies for multicolored cell phenotyping. Am J Clin Pathol. 2010; 134:586–593. PMID:
20855639.
Article
13. Telford WG, Hawley T, Subach F, Verkhusha V, Hawley RG. Flow cytometry of fluorescent proteins. Methods. 2012; 57:318–330. PMID:
22293036.
Article
14. Robinson JP, Rajwa B, Patsekin V, Davisson VJ. Computational analysis of high-throughput flow cytometry data. Expert Opin Drug Discov. 2012; 7:679–693. PMID:
22708834.
Article
15. De Rosa SC, Brenchley JM, Roederer M. Beyond six colors: a new era in flow cytometry. Nat Med. 2003; 9:112–117. PMID:
12514723.
Article
16. Appay V, van Lier RA, Sallusto F, Roederer M. Phenotype and function of human T lymphocyte subsets: consensus and issues. Cytometry A. 2008; 73:975–983. PMID:
18785267.
Article
17. Craig FE, Foon KA. Flow cytometric immunophenotyping for hematologic neoplasms. Blood. 2008; 111:3941–3967. PMID:
18198345.
Article
18. Danna EA, Nolan GP. Transcending the biomarker mindset: deciphering disease mechanisms at the single cell level. Curr Opin Chem Biol. 2006; 10:20–27. PMID:
16406766.
Article
19. Krutzik PO, Crane JM, Clutter MR, Nolan GP. High-content single-cell drug screening with phosphospecific flow cytometry. Nat Chem Biol. 2008; 4:132–142. PMID:
18157122.
Article
20. Maino VC, Picker LJ. Identification of functional subsets by flow cytometry: intracellular detection of cytokine expression. Cytometry. 1998; 34:207–215. PMID:
9822306.
Article
21. Perez OD, Mitchell D, Campos R, Gao GJ, Li L, Nolan GP. Multiparameter analysis of intracellular phosphoepitopes in immunophenotyped cell populations by flow cytometry. Curr Protoc Cytom. 2005; Chapter 6:Unit 6.20. PMID:
18770823.
Article
22. Chattopadhyay PK, Gaylord B, Palmer A, Jiang N, Raven MA, Lewis G, Reuter MA, Nur-ur Rahman AK, Price DA, Betts MR, Roederer M. Brilliant violet fluorophores: a new class of ultrabright fluorescent compounds for immunofluorescence experiments. Cytometry A. 2012; 81:456–466. PMID:
22489009.
Article
23. Chattopadhyay PK. Quantum dot technology in flow cytometry. Methods Cell Biol. 2011; 102:463–477. PMID:
21704850.
Article
24. Kalina T, Flores-Montero J, van der Velden VH, Martin-Ayuso M, Böttcher S, Ritgen M, Almeida J, Lhermitte L, Asnafi V, Mendonça A, de Tute R, Cullen M, Sedek L, Vidriales MB, Pérez JJ, te Marvelde JG, Mejstrikova E, Hrusak O, Szczepański T, van Dongen JJ, Orfao A. EuroFlow Consortium (EU-FP6, LSHB-CT-2006-018708). EuroFlow standardization of flow cytometer instrument settings and immunophenotyping protocols. Leukemia. 2012; 26:1986–2010. PMID:
22948490.
Article
25. Crissman HA, Darzynkiewicz Z, Tobey RA, Steinkamp JA. Correlated measurements of DNA, RNA, and protein in individual cells by flow cytometry. Science. 1985; 228:1321–1324. PMID:
2408339.
Article
26. Peixoto A, Monteiro M, Rocha B, Veiga-Fernandes H. Quantification of multiple gene expression in individual cells. Genome Res. 2004; 14:1938–1947. PMID:
15466292.
Article
27. Krutzik PO, Clutter MR, Trejo A, Nolan GP. Fluorescent cell barcoding for multiplex flow cytometry. Curr Protoc Cytom. 2011; Chapter 6:Unit 6.31. PMID:
21207359.
Article
28. Krutzik PO, Nolan GP. Fluorescent cell barcoding in flow cytometry allows high-throughput drug screening and signaling profiling. Nat Methods. 2006; 3:361–368. PMID:
16628206.
Article
29. Bodenmiller B, Zunder ER, Finck R, Chen TJ, Savig ES, Bruggner RV, Simonds EF, Bendall SC, Sachs K, Krutzik PO, Nolan GP. Multiplexed mass cytometry profiling of cellular states perturbed by small-molecule regulators. Nat Biotechnol. 2012; 30:858–867. PMID:
22902532.
Article
30. Nomura L, Maino VC, Maecker HT. Standardization and optimization of multiparameter intracellular cytokine staining. Cytometry A. 2008; 73:984–991. PMID:
18612990.
Article
31. Suni MA, Dunn HS, Orr PL, de Laat R, Sinclair E, Ghanekar SA, Bredt BM, Dunne JF, Maino VC, Maecker HT. Performance of plate-based cytokine flow cytometry with automated data analysis. BMC Immunol. 2003; 4:9. PMID:
12952557.
32. Gray JW, Darzynkiewicz Z. Techniques in cell cycle analysis. 1987. Totowa, NJ: Humana Press.
33. Darzynkiewicz Z, Traganos F, Sharpless T, Melamed MR. Lymphocyte stimulation: a rapid multiparameter analysis. Proc Natl Acad Sci U S A. 1976; 73:2881–2884. PMID:
822422.
Article
34. Cappella P, Gasparri F, Pulici M, Moll J. A novel method based on click chemistry, which overcomes limitations of cell cycle analysis by classical determination of BrdU incorporation, allowing multiplex antibody staining. Cytometry A. 2008; 73:626–636. PMID:
18521918.
Article
35. Feig C, Peter ME. How apoptosis got the immune system in shape. Eur J Immunol. 2007; 37(Suppl 1):S61–S70. PMID:
17972347.
Article
36. Hanahan D, Weinberg RA. Hallmarks of cancer: the next generation. Cell. 2011; 144:646–674. PMID:
21376230.
Article
37. Wlodkowic D, Telford W, Skommer J, Darzynkiewicz Z. Apoptosis and beyond: cytometry in studies of programmed cell death. Methods Cell Biol. 2011; 103:55–98. PMID:
21722800.
Article
38. Wlodkowic D, Skommer J, Darzynkiewicz Z. Cytometry in cell necrobiology revisited. Recent advances and new vistas. Cytometry A. 2010; 77:591–606. PMID:
20235235.
Article
39. Tanaka T, Halicka HD, Traganos F, Seiter K, Darzynkiewicz Z. Induction of ATM activation, histone H2AX phosphorylation and apoptosis by etoposide: relation to cell cycle phase. Cell Cycle. 2007; 6:371–376. PMID:
17297310.
Article
40. Schulz KR, Danna EA, Krutzik PO, Nolan GP. Single-cell phospho-protein analysis by flow cytometry. Curr Protoc Immunol. 2012; Chapter 8:Unit 8.17.1–Unit 8.17.20.
Article
41. Juan G, Traganos F, James WM, Ray JM, Roberge M, Sauve DM, Anderson H, Darzynkiewicz Z. Histone H3 phosphorylation and expression of cyclins A and B1 measured in individual cells during their progression through G2 and mitosis. Cytometry. 1998; 32:71–77. PMID:
9627219.
Article
42. Fleisher TA, Dorman SE, Anderson JA, Vail M, Brown MR, Holland SM. Detection of intracellular phosphorylated STAT-1 by flow cytometry. Clin Immunol. 1999; 90:425–430. PMID:
10075873.
Article
43. Chow S, Patel H, Hedley DW. Measurement of MAP kinase activation by flow cytometry using phospho-specific antibodies to MEK and ERK: potential for pharmacodynamic monitoring of signal transduction inhibitors. Cytometry. 2001; 46:72–78. PMID:
11309815.
Article
44. Zell T, Khoruts A, Ingulli E, Bonnevier JL, Mueller DL, Jenkins MK. Single-cell analysis of signal transduction in CD4 T cells stimulated by antigen in vivo. Proc Natl Acad Sci U S A. 2001; 98:10805–10810. PMID:
11535838.
Article
45. Perez OD, Nolan GP. Simultaneous measurement of multiple active kinase states using polychromatic flow cytometry. Nat Biotechnol. 2002; 20:155–162. PMID:
11821861.
Article
46. Tazzari PL, Cappellini A, Bortul R, Ricci F, Billi AM, Tabellini G, Conte R, Martelli AM. Flow cytometric detection of total and serine 473 phosphorylated Akt. J Cell Biochem. 2002; 86:704–715. PMID:
12210737.
Article
47. Krutzik PO, Nolan GP. Intracellular phospho-protein staining techniques for flow cytometry: monitoring single cell signaling events. Cytometry A. 2003; 55:61–70. PMID:
14505311.
Article
48. Chow S, Hedley D, Grom P, Magari R, Jacobberger JW, Shankey TV. Whole blood fixation and permeabilization protocol with red blood cell lysis for flow cytometry of intracellular phosphorylated epitopes in leukocyte subpopulations. Cytometry A. 2005; 67:4–17. PMID:
16080188.
Article
49. Suni MA, Maino VC. Flow cytometric analysis of cell signaling proteins. Methods Mol Biol. 2011; 717:155–169. PMID:
21370030.
Article
50. Irish JM, Czerwinski DK, Nolan GP, Levy R. Altered B-cell receptor signaling kinetics distinguish human follicular lymphoma B cells from tumor-infiltrating nonmalignant B cells. Blood. 2006; 108:3135–3142. PMID:
16835385.
Article
51. Sadeghi K, Berger A, Langgartner M, Prusa AR, Hayde M, Herkner K, Pollak A, Spittler A, Forster-Waldl E. Immaturity of infection control in preterm and term newborns is associated with impaired toll-like receptor signaling. J Infect Dis. 2007; 195:296–302. PMID:
17191175.
Article
52. Zeiser R, Leveson-Gower DB, Zambricki EA, Kambham N, Beilhack A, Loh J, Hou JZ, Negrin RS. Differential impact of mammalian target of rapamycin inhibition on CD4+CD25+Foxp3+ regulatory T cells compared with conventional CD4+ T cells. Blood. 2008; 111:453–462. PMID:
17967941.
Article
53. Perfetto SP, Chattopadhyay PK, Lamoreaux L, Nguyen R, Ambrozak D, Koup RA, Roederer M. Amine-reactive dyes for dead cell discrimination in fixed samples. Curr Protoc Cytom. 2010; Chapter 9:Unit 9.34. PMID:
20578108.
Article
54. Henriksen M, Miller B, Newmark J, Al-Kofahi Y, Holden E. Laser scanning cytometry and its applications: a pioneering technology in the field of quantitative imaging cytometry. Methods Cell Biol. 2011; 102:161–205. PMID:
21704839.
Article
55. Zuba-Surma EK, Ratajczak MZ. Analytical capabilities of the ImageStream cytometer. Methods Cell Biol. 2011; 102:207–230. PMID:
21704840.
Article
56. Clutter MR, Heffner GC, Krutzik PO, Sachen KL, Nolan GP. Tyramide signal amplification for analysis of kinase activity by intracellular flow cytometry. Cytometry A. 2010; 77:1020–1031. PMID:
20824632.
Article
57. Krutzik PO, Trejo A, Schulz KR, Nolan GP. Phospho flow cytometry methods for the analysis of kinase signaling in cell lines and primary human blood samples. Methods Mol Biol. 2011; 699:179–202. PMID:
21116984.
Article
58. Kuckuck FW, Edwards BS, Sklar LA. High throughput flow cytometry. Cytometry. 2001; 44:83–90. PMID:
11309812.
Article
59. Bashashati A, Brinkman RR. A survey of flow cytometry data analysis methods. Adv Bioinformatics. 2009; 584603. PMID:
20049163.
Article
60. Lugli E, Roederer M, Cossarizza A. Data analysis in flow cytometry: the future just started. Cytometry A. 2010; 77:705–713. PMID:
20583274.
Article
61. Aghaeepour N, Nikolic R, Hoos HH, Brinkman RR. Rapid cell population identification in flow cytometry data. Cytometry A. 2011; 79:6–13. PMID:
21182178.
Article
62. Sachs K, Gentles AJ, Youland R, Itani S, Irish J, Nolan GP, Plevritis SK. Characterization of patient specific signaling via augmentation of Bayesian networks with disease and patient state nodes. Conf Proc IEEE Eng Med Biol Soc. 2009; 2009:6624–6627. PMID:
19963681.
Article
63. Qiu P, Simonds EF, Bendall SC, Gibbs KD Jr, Bruggner RV, Linderman MD, Sachs K, Nolan GP, Plevritis SK. Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE. Nat Biotechnol. 2011; 29:886–891. PMID:
21964415.
Article
64. Pedreira CE, Costa ES, Barrena S, Lecrevisse Q, Almeida J, van Dongen JJ, Orfao A. EuroFlow Consortium. Generation of flow cytometry data files with a potentially infinite number of dimensions. Cytometry A. 2008; 73:834–846. PMID:
18629843.
Article
65. Bagwell CB. Breaking the dimensionality barrier. Methods Mol Biol. 2011; 699:31–51. PMID:
21116977.
Article
66. Bendall SC, Simonds EF, Qiu P, Amir el AD, Krutzik PO, Finck R, Bruggner RV, Melamed R, Trejo A, Ornatsky OI, Balderas RS, Plevritis SK, Sachs K, Pe'er D, Tanner SD, Nolan GP. Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuum. Science. 2011; 332:687–696. PMID:
21551058.
Article
67. Ornatsky O, Bandura D, Baranov V, Nitz M, Winnik MA, Tanner S. Highly multiparametric analysis by mass cytometry. J Immunol Methods. 2010; 361:1–20. PMID:
20655312.
Article
68. Auksorius E, Bromberg Y, Motiejúnaité R, Pieretti A, Liu L, Coron E, Aranda J, Goldstein AM, Bouma BE, Kazlauskas A, Tearney GJ. Dual-modality fluorescence and full-field optical coherence microscopy for biomedical imaging applications. Biomed Opt Express. 2012; 3:661–666. PMID:
22435110.
Article
69. Barteneva NS, Fasler-Kan E, Vorobjev IA. Imaging flow cytometry: coping with heterogeneity in biological systems. J Histochem Cytochem. 2012; 60:723–733. PMID:
22740345.
70. Pierzchalski A, Mittag A, Tárnok A. Introduction A: recent advances in cytometry instrumentation, probes, and methods--review. Methods Cell Biol. 2011; 102:1–21. PMID:
21704833.
71. Shapiro HM, Perlmutter NG. Personal cytometers: slow flow or no flow? Cytometry A. 2006; 69:620–630. PMID:
16680701.
Article
72. Petersen TW, Brent Harrison C, Horner DN, van den Engh G. Flow cytometric characterization of marine microbes. Methods. 2012; 57:350–358. PMID:
22796378.
Article
73. Wlodkowic D, Khoshmanesh K, Akagi J, Williams DE, Cooper JM. Wormometry-on-a-chip: Innovative technologies for in situ analysis of small multicellular organisms. Cytometry A. 2011; 79:799–813. PMID:
21548078.
Article
74. Orozco AF, Lewis DE. Flow cytometric analysis of circulating microparticles in plasma. Cytometry A. 2010; 77:502–514. PMID:
20235276.
Article
75. Chang Q, Hedley D. Emerging applications of flow cytometry in solid tumor biology. Methods. 2012; 57:359–367. PMID:
22503773.
Article
76. Tárnok A, Ulrich H, Bocsi J. Phenotypes of stem cells from diverse origin. Cytometry A. 2010; 77:6–10. PMID:
20024907.
77. Ochatt SJ. Flow cytometry in plant breeding. Cytometry A. 2008; 73:581–598. PMID:
18431774.
Article
78. Petrunkina AM, Harrison RA. Cytometric solutions in veterinary andrology: Developments, advantages, and limitations. Cytometry A. 2011; 79:338–348. PMID:
21448977.
Article
79. Müller S, Nebe-von-Caron G. Functional single-cell analyses: flow cytometry and cell sorting of microbial populations and communities. FEMS Microbiol Rev. 2010; 34:554–587. PMID:
20337722.
Article