Cytobank – As the cell flows

Publications

To reference Cytobank in your manuscript, cite our manuscript that appears in Current Protocols in Cytometry in July 2010. For example, your citation might look like this:

In-Text: “Data were analyzed using Cytobank [1].” Reference: [1] Kotecha N, Krutzik PO, Irish JM.   Web-based Analysis and Publication of Flow Cytometry Experiments.  Current Protocols in Cytometry 2010 Jul, Chapter 10, Unit10.17. PMID: 20578106

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Publications Referencing Cytobank

Leave us a comment below if we’ve missed any!

An introduction to mass cytometry: fundamentals and applications. Tanner SD, et al. Cancer Immunol Immunother (2013) [Epub ahead of print]

Spanning-Tree Progression Analysis of Density-Normalized Events (SPADE). Qiu P, et al. Patent application (2013)

The autoimmune-predisposing variant of lymphoid tyrosine phosphatase favors T helper 1 responses. Vang T, et al. Hum Immunol (2013) Epub ahead of print [PubMed]

EGF signalling and rapamycin-mediated mTOR inhibition in glioblastoma multiforme evaluated by phospho-specific flow cytometry. Cornez I, et al. J Neurooncol (2013) 112(1):49-57 [PubMed]

High PD-1 expression and suppressed cytokine signaling distinguish T cells infiltrating follicular lymphoma tumors from peripheral T cells. Myklebust JH et al. Blood (2013) 121(8):1367-76 [PubMed]

Evaluation and purchase of an analytical flow cytometer: some of the numerous factors to consider. Zucker RM and Fisher NC. Curr Protoc Cytom (2013) Chapter 1:Unit1.28. doi: 10.1002/0471142956.cy0128s63 [PubMed]

Use of Phospho-flow Cytometry to Define Influence of High-Risk Genetic Abnormalities on Cytokine-Responsiveness in Human B-cell Leukemia. Kraguljac AP. Dissertation: Univ of Toronto (2012) Graduate Department of Medical Biophysics, Faculty of Medicine. [Google Scholar]

Isolation and characterization of cancer stem cells in vitro. Geydye C and Ailles L. Methods Mol Biol (2013) 946:181-204. doi: 10.1007/978-1-62703-128-8_12. [PubMed]

Nitroreductase, a near infrared reporter platform for in vivo time-domain optical imaging of metastatic cancer. McCormack E et al. Cancer Res (2012) 73(4):1276-86 [PubMed]

Interleukin-33 Drives a Proinflammatory Endothelial Activation That Selectively Targets Nonquiescent Cells. Pollheimer J et al. Arterioscler Thromb Vasc Biol. (2012) 33(2):e47-55 [PubMed]

Aberrant kinase activation as a therapy target: Chronic myeloid leukemia as a model disease. Hernesniemi S. (2012). Doctoral Dissertation: Hematology Research Unit, Biomedicum, University of Helsinki, Faculty of Medicine, Institute of Clinical Medicine. [View Online]

Phospho-specific flow cytometry identifies aberrant signaling in indolent B-cell lymphoma. Blix ES et al. BMC Cancer. (2012) 12:478 [PubMed]

RchyOptimyx: Cellular hierarchy optimization for flow cytometry. Aghaeepour N et al. Cytometry A. (2012) 81A(12):1022-30 [PubMed]

The various faces of autoimmune endocrinopathies: Non-tumoral hypergastrinemia in a patient with lymphocytic colitis and chronic autoimmune gastritis. Melcescu E et al. Exp Mol Pathol. (2012) 93(3):434-40 [PubMed]

Role of Smad Proteins in Resistance to BMP-Induced Growth Inhibition in B-Cell Lymphoma. Husel K et al. PLoS ONE. (2012)  e46117. doi:10.1371/journal.pone.0046117 [Journal]

Self-antigen recognition by follicular lymphoma B cell receptors. Sachen KL et al. Blood. (2012) 120(20):4182-90 [PubMed]

Big data in computational biology. Chan C. XRDS: Crossroads (2012) 19(1):64-68. [Journal]

Targeting JAK1/2 and mTOR in murine xenograft models of Ph-like acute lymphoblastic leukemia (ALL). Maude SL et al. Blood (2012) 120(17):3510-18 [PubMed]

Multiplexed mass cytometry profiling of cellular states perturbed by small-molecule regulators. Bodenmiller B et al. Nat Biotechnol (2012) 30:858-67 doi:10.1038/nbt.2317 [PubMed]

Preparing a Minimum Information about a Flow Cytometry Experiment (MIFlowCyt) Compliant Manuscript Using the International Society (ISAC) FCS File Repository (FlowRepository.org). Spidlen J, Breuer K, and Brinkman R. Curr Protoc cytom (2012) Chapter 10:Unit10.18. [PubMed]

CytoSPADE: High-Performance Analysis and Visualization of High-Dimension Cytometry Data. Linderman MD, et al. Bioinformatics (2012) 28(18):2400-01 [PubMed]

FlowRepository: A resource of annotated flow cytometry datasets associated with peer-reviewed publications. Spidlen J, et al. Cytometry A (2012) doi: 10.1002/cyto.a.22106 [Journal]

Computational analysis of high-throughput flow cytometry data. Robinson JP et al. Expert Opin Drug Discov (2012) 7(8):679-93 [PubMed]

Single-cell mass cytometry adapted to measurements of the cell cycle. Behbehani GK et al. Cytometry A (2012) 81A(7):552-66 [PubMed]

Modulation of proximal signaling in normal and transformed B cells by transmembrane adaptor Cbp/PAG. Solheim SA et al. Exp Cell Res (2012) 318(14):1611-19 [PubMed]

A platinum-based covalent viability reagent for single-cell mass cytometry. Fienberg HG et al. Cytometry A (2012) 81A(6):467-75 [PubMed]

Systematic Analysis of Cell Cycle Effects of Common Drugs Leads to the Discovery of a Suppressive Interaction between Gemfibrozil and Fluoxetine. Hoose SA et al. PLoS ONE (2012) 7(5): e36503. doi:10.1371/journal.pone.0036503 [Journal]

A Computational Framework to Emulate the Human Perspective in Flow Cytometric Data analysis. Ray S and Pyne S. PLoS ONE (2012) 7(5): e35693. doi:10.1371/journal.pone.0035693 [Journal]

Encapsulation of angiogenic monocytes using bio-spraying technology. Patel AS et al. Integr Biol (2012) 6(4):628-32  [Journal]

Low concentrations of bisphenol A induce lipid accumulation mediated by the production of reactive oxygen species in the mitochondria of HepG2 cells. Huc L et al. Toxicol in Vitro (2012)  26(5):709-17 [Journal]

A deep profiler’s guide to cytometry. Bendall S et al. Trends Immunol (2012) 33(7):323-32  [Journal]

Heat shock proteins induction reduces stress kinases activation, potentially improving insulin signalling in monocytes from obese subjects. Simar D et al. Cell Stress Chaperones (2012) 17(5):615-21 [PubMed]

The Stanford Data Miner: a novel approach for integrating and exploring heterogeneous immunological data. Siebert J et al. J Transl Med (2012) 10(1):62 [PubMed]

A Systematic Analysis of Cell Cycle Regulators in Yeast Reveals That Most Factors Act Independently of Cell Size to Control Initiation of Division. Hoose SA et al. PLoS Genet (2012) 8(3):e1002590. [PubMed]

eIF2α Kinases Regulate Development through the BzpR Transcription Factor in Dictyosteliumdiscoideum. Singleton CK et al. PLoS One (2012) 7(3):e32500. [PubMed]

Stimulation of natural killer cells with a CD137-specific antibody enhances trastuzumab efficacy inxenotransplant models of breast cancer. Kohrt HE et al. J Clin Invest (2012) 122(3):1066-75. [PubMed]

Analyzing genomic data: understanding the genome. Fernández-Suárez XM. WIREs Data Mining Knowl Discov (2012) 2(2):116-137 [Journal]

Trogocytosis is a Gateway to Characterize Functional Diversity in Melanoma-Specific CD8+ T Cell Clones. Uzana R et al. J Immunol (2011) 188(2):632-4 [PubMed]

In situ vaccination against mycosis fungoides by intratumoral injection of a TLR9 agonist combined with radiation: a phase I/II study. Kim YH et al. Blood (2011) 119(2):355-63 [PubMed]

Bone morphogenetic proteins inhibit CD40L/IL‐21‐induced Ig production in human Bcells: Differential effects of BMP‐6 and BMP‐7. Huse K et al. Eur J Immunol (2011) 41(11):3135-45 [PubMed]

T Cell-Signaling Network Analysis Reveals Distinct Differences between CD28 and CD2 Costimulation Responses in Various Subsets and in the MAPK Pathway between Resting and Activated Regulatory T Cells. Kalland ME et al. J Immunol (2011) 187(10):5233-45 [PubMed]

Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE. Nat Biotechnol (2011) 29(10):886-91 [PubMed]

A regression model approach to enable cell morphology correction in high-throughput flow cytometry. Knijnenburg TA et al. Mol Syst Biol (2011) 7:531 [PubMed]

CpG and Non-CpG Oligodeoxynucleotides Directly Costimulate Mouse and Human CD4+ T Cells through a TLR9-and MyD88-Independent Mechanism. Landrigan A et al. J Immunol (2011) 187(6):3033-43 [PubMed]

Donor immunization with WT1 peptide augments anti-leukemic activity after MHC-matched bone marrow transplantation. Kohrt HE, et al. Blood (2011) 118(19):5319-29 [PubMed]

Structural Linkage between Ligand Discrimination and Receptor Activation by Type I Interferons. Thomas C et al. Cell (2011) 146(4):621-32 [PubMed]

Molecular imaging with optical coherence tomography using ligand-conjugated microparticles that detect activated endothelial cells: Rational design through target quantification. Jefferson A et al. Atherosclerosis (2011) 219(2):579-87 [PubMed]

Prediction of survival in diffuse large B-cell lymphoma based on the expression of 2 genes reflecting tumor and microenvironment. Alizadeh AA et al. Blood (2011) 118(5):1350-8 [PubMed]

Leukemia inhibitory factor downregulates human papillomavirus-16 oncogene expression and inhibits the proliferation of cervical carcinoma cells. Bay JM et al. Infect Dis Obstet Gynecol (2011) 2011:463081. [PubMed]

Single-Cell Mass Cytometry of Differential Immune and Drug Responses Across a Human Hematopoietic Continuum. Bendall SC et al. Science (2011) 332(6030):687-96 [PubMed]

Flow cytometry data standards. Spidlen J et al. BMC Res Notes (2011) 4:50 [PubMed]

Untangling the intracellular signalling network in cancer-a strategy for data integration in acute myeloid leukaemia. Jørgensen KM et al. J Proteomics (2011) 74(3):269-81 [PubMed]

CD137 stimulation enhances the antilymphoma activity of anti-CD20 antibodies. Kohrt HE et al. Blood (2011) 117(8):2423-32 [PubMed]

Specific cellular signal-transduction responses to in vivo combination therapy with ATRA, valproic acid and theophylline in acute myeloid leukemia. J Skavland, et al. Blood Cancer Journal (2011) 1, e4 [Journal]

Cell-to-cell variability in PI3K protein level regulates PI3K-AKT pathway activity in cell populations. Yuan TL et al. Curr Biol (2011) 21(3):173-83 [PubMed]

Fluorescent Cell Barcoding for Multiplex Flow Cytometry. Krutzik PO et al. Curr Protoc Cytom (2011) Chapter 6:Unit 6.31 [PubMed]

Oxidative Stress Induces Reactivation of Kaposi’s Sarcoma-Associated Herpesvirus and Death of Primary Effusion Lymphoma Cells. Li X et al. Journal of Virology (2011) 85(2):715-724 [PubMed]

Poor cytokine-induced phosphorylation in chronic myeloid leukemia patients at diagnosis is effectively reversed by tyrosine kinase inhibitor therapy. Jalkanen SE et al. Exp Hematol (2011) 39(1):102-113.e1 [PubMed]

Phospho Flow Cytometry: Single‐Cell Signaling Networks in Next‐Generation Drug Discovery and Patient Stratification. Krutzik PO et al. A chapter in “Flow Cytometry in Drug Discovery and Development” by Litwin V and Marder P (2011)  pp. 303-334 [Google Books]

A CpG-loaded tumor cell vaccine induces antitumor CD4+ T cells that are effective in adoptive therapy for large and established tumors. Goldstein MJ et al. Blood (2011) 117(1):118-27 [PubMed]

Phospho Flow Cytometry Methods for the Analysis of Kinase Signaling in Cell Lines and Primary Human Blood Samples. Krutzik PO et al. Methods in Molecular Biology (2011) 699:179-202 [PubMed]

The Role of Phosphoinositide 3-Kinase in Breast Cancer. Yuan T. DTIC Online (2010) Access number: ADA541781

High-resolution mapping of prostaglandin E2–dependent signaling networks identifies a constitutively active PKA signaling node in CD8+CD45RO+ T cells. Oberprieler NG et al. Blood (2010) vol. 116(13):2253-2265 [PubMed]

Novel mutations in the inhibitory adaptor protein LNK drive JAK-STAT signaling in patients with myeloproliferative neoplasms. Oh ST et al. Blood (2010) 116(6):988-92 [PubMed]

B-cell signaling networks reveal a negative prognostic human lymphoma cell subset that emerges during tumor progression. Irish JM et al. Proc Natl Acad Sci U S A (2010) 107(29):12747-54 [PubMed]

Web-Based Analysis and Publication of Flow Cytometry Experiments. Kotecha N, Krutzik PO, and Irish JM. Curr Protoc Cytom (2010) Chapter 10:Unit10.17 [PubMed]

Access to the Spleen Microenvironment through Lymph Shows Local Cytokine Production, Increased Cell Flux, and Altered Signaling of Immune Cells during Lipopolysaccharide-Induced Acute Inflammation. Semaeva E et al. J Immunol (2010) 184(8):4547-56 [PubMed]

PI3K p110δ regulates T-cell cytokine production during primary and secondary immune responses in mice and humans. Soond DR et al. Blood (2010) 115(11):2203-13 [PubMed]

High-Content Analysis – CHI’s Seventh Annual Conference – Flow Cytometry in Drug Discovery and Development. Robinson JP. IDrugs (2010) 13:153-155 [PubMed]

CD81 protein is expressed at high levels in normal germinal center B cells and in subtypes of human lymphomas. Luo RF et al. Human Pathology (2010) 41(2):271-280 [PubMed]

Generation of CD8+ T cell–mediated immunity against idiotype-negative lymphoma escapees. Varghese B et al. Blood (2009) 114(20):4477-4485 [PubMed]

Therapeutic effect of CD137 immunomodulation in lymphoma and its enhancement by Treg depletion. Houot R et al. Blood (2009) 114(16):3431-3438 [PubMed]

T-cell modulation combined with intratumoral CpG cures lymphoma in a mouse model without the need for chemotherapy. Houot R and Levy R. Blood (2009) 113(15):3546-3552 [PubMed]

WebFlow: a software package for high-throughput analysis of flow cytometry data. Hammer MM et al. Assay Drug Dev Technol (2009) 7(1):44-55 [PubMed]

Single-cell profiling identifies aberrant STAT5 activation in myeloid malignancies with specific clinical and biologic correlates. Kotecha N et al. Cancer Cell (2008) 14(4):335-43 [PubMed]