Proliferative tracing with single-cell mass cytometry optimizes generation of stem cell memory-like T cells

[1]  Trevor Hastie,et al.  An Introduction to Statistical Learning , 2013, Springer Texts in Statistics.

[2]  Jeffrey R. Whiteaker,et al.  Phosphoproteomic analysis of chimeric antigen receptor signaling reveals kinetic and quantitative differences that affect cell function , 2018, Science Signaling.

[3]  J. Byrd,et al.  Durable Molecular Remissions in Chronic Lymphocytic Leukemia Treated With CD19-Specific Chimeric Antigen Receptor-Modified T Cells After Failure of Ibrutinib. , 2017, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[4]  Jeffrey A Jones,et al.  Ibrutinib treatment improves T cell number and function in CLL patients , 2017, The Journal of clinical investigation.

[5]  J. Byrd,et al.  CD19 CAR-T cells combined with ibrutinib to induce complete remission in CLL. , 2017 .

[6]  C. Walsh,et al.  Building a lineage from single cells: genetic techniques for cell lineage tracking , 2017, Nature Reviews Genetics.

[7]  Yen-Hua Chen,et al.  CD4+ T cell effector commitment coupled to self-renewal by asymmetric cell divisions , 2017, The Journal of experimental medicine.

[8]  Grace X. Y. Zheng,et al.  Massively parallel digital transcriptional profiling of single cells , 2016, Nature Communications.

[9]  Chiara Bonini,et al.  T memory stem cells in health and disease , 2017, Nature Medicine.

[10]  M. Sabatino,et al.  Generation of clinical-grade CD19-specific CAR-modified CD8+ memory stem cells for the treatment of human B-cell malignancies. , 2016, Blood.

[11]  G. Nolan,et al.  Automated Mapping of Phenotype Space with Single-Cell Data , 2016, Nature Methods.

[12]  J. Byrd,et al.  Ibrutinib enhances chimeric antigen receptor T-cell engraftment and efficacy in leukemia. , 2016, Blood.

[13]  Dmitri I. Kotov,et al.  Most microbe-specific naïve CD4+ T cells produce memory cells during infection , 2016, Science.

[14]  Yangqiu Li,et al.  The roles of stem cell memory T cells in hematological malignancies , 2015, Journal of Hematology & Oncology.

[15]  Fabian J. Theis,et al.  destiny: diffusion maps for large-scale single-cell data in R , 2015, Bioinform..

[16]  S. Rosenberg,et al.  Adoptive cell transfer as personalized immunotherapy for human cancer , 2015, Science.

[17]  Eli R. Zunder,et al.  A continuous molecular roadmap to iPSC reprogramming through progression analysis of single-cell mass cytometry. , 2015, Cell stem cell.

[18]  S. H. van der Burg,et al.  Consensus nomenclature for CD 8 T cell phenotypes in cancer , 2015 .

[19]  Eli R. Zunder,et al.  Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm , 2015, Nature Protocols.

[20]  Philip D. Hodgkin,et al.  Antigen affinity, costimulation, and cytokine inputs sum linearly to amplify T cell expansion , 2014, Science.

[21]  P. Hodgkin,et al.  Why the immune system takes its chances with randomness , 2014, Nature Reviews Immunology.

[22]  D. Bates,et al.  Fitting Linear Mixed-Effects Models Using lme4 , 2014, 1406.5823.

[23]  M. Jacomy,et al.  ForceAtlas2, a Continuous Graph Layout Algorithm for Handy Network Visualization Designed for the Gephi Software , 2014, PloS one.

[24]  Xavier Woot de Trixhe,et al.  Population pharmacokinetic model of ibrutinib, a Bruton tyrosine kinase inhibitor, in patients with B cell malignancies , 2014, Cancer Chemotherapy and Pharmacology.

[25]  A. Filby,et al.  A method for evaluating the use of fluorescent dyes to track proliferation in cell lines by dye dilution , 2013, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[26]  Jeffrey A Jones,et al.  Ibrutinib is an irreversible molecular inhibitor of ITK driving a Th1-selective pressure in T lymphocytes. , 2013, Blood.

[27]  Joost B. Beltman,et al.  Heterogeneous Differentiation Patterns of Individual CD8+ T Cells , 2013, Science.

[28]  Sean C. Bendall,et al.  Normalization of mass cytometry data with bead standards , 2013, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[29]  R. Advani,et al.  Bruton tyrosine kinase inhibitor ibrutinib (PCI-32765) has significant activity in patients with relapsed/refractory B-cell malignancies. , 2013, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

[30]  Ben J. C. Quah,et al.  The use of CFSE-like dyes for measuring lymphocyte proliferation: experimental considerations and biological variables , 2012 .

[31]  Erin F. Simonds,et al.  A platinum‐based covalent viability reagent for single‐cell mass cytometry , 2012, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[32]  C. Parish,et al.  New and improved methods for measuring lymphocyte proliferation in vitro and in vivo using CFSE-like fluorescent dyes. , 2012, Journal of immunological methods.

[33]  Sean C. Bendall,et al.  Single-Cell Mass Cytometry of Differential Immune and Drug Responses Across a Human Hematopoietic Continuum , 2011, Science.

[34]  R. Kurlander,et al.  Comparison of anti-CD3 and anti-CD28-coated beads with soluble anti-CD3 for expanding human T cells: Differing impact on CD8 T cell phenotype and responsiveness to restimulation , 2010, Journal of Translational Medicine.

[35]  C. Parish,et al.  The Use of Carboxyfluorescein Diacetate Succinimidyl Ester (CFSE) to Monitor Lymphocyte Proliferation , 2010, Journal of visualized experiments : JoVE.

[36]  Trevor Hastie,et al.  Regularization Paths for Generalized Linear Models via Coordinate Descent. , 2010, Journal of statistical software.

[37]  Kendall A. Smith,et al.  Prolonged interleukin-2Ralpha expression on virus-specific CD8+ T cells favors terminal-effector differentiation in vivo. , 2010, Immunity.

[38]  R. Ahmed,et al.  mTOR regulates memory CD8 T cell differentiation , 2009, Nature.

[39]  John T. Chang,et al.  Asymmetric T Lymphocyte Division in the Initiation of Adaptive Immune Responses , 2007, Science.

[40]  Stéphane Lafon,et al.  Diffusion maps , 2006 .

[41]  Ann B. Lee,et al.  Geometric diffusions as a tool for harmonic analysis and structure definition of data: diffusion maps. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[42]  M. H. Ensom,et al.  Sirolimus: the evidence for clinical pharmacokinetic monitoring. , 2005, Clinical pharmacokinetics.

[43]  R. Tibshirani.  Regression Shrinkage and Selection via the Lasso , 1996 .

[44]  A. B. Lyons,et al.  Determination of lymphocyte division by flow cytometry. , 1994, Journal of immunological methods.