Enhanced flowType/RchyOptimyx: a BioConductor pipeline for discovery in high-dimensional cytometry data.
TLDR
A significantly improved version of the flowType and RchyOptimyx BioConductor-based pipeline is presented that is both 14 times faster and can accommodate multiple levels of biomarker expression for up to 96 markers, positioned to be an integral part of data analysis for high-throughput experiments on high-dimensional single-cell assay platforms.Abstract:
We present a significantly improved version of the flowType and RchyOptimyx BioConductor-based pipeline that is both 14 times faster and can accommodate multiple levels of biomarker expression for up to 96 markers. With these improvements, the pipeline is positioned to be an integral part of data analysis for high-throughput experiments on high-dimensional single-cell assay platforms, including flow cytometry, mass cytometry and single-cell RT-qPCR.read more
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Dissertation
Characterization of Molecular Correlates of the Chronic Humoral Immune Response: Clues towards Eliciting Broadly Neutralizing Antibodies against HIV
TL;DR: This work is in preparation of submission to PLoS One, where it is expected that this work will be selected as a candidate for inclusion in the next generation of “big data” assessments.
Automated analysis of single cell leukemia data
TL;DR: These developments enable rapid, automated, objective and reproducible deep profiling of AML flow cytometry data, subclonal cell analysis ofAML cytogenetics, and improvements to model organisms used in AML research.
Journal ArticleDOI
Identifying Cell Populations in Flow Cytometry Data Using Phenotypic Signatures
TL;DR: A time-efficient method that accurately identifies cellular populations based on a novel technique that estimates the initial number of clusters in high dimension and identifies the final clusters by merging clusters using their phenotypic signatures in low dimension is developed.
Journal ArticleDOI
CytoBinning: Immunological insights from multi-dimensional data.
TL;DR: This work proposes a new method for the automated and unbiased analysis of high-dimensional single cell datasets that is simple and robust, with the goal of reducing this complex information into a familiar 2D scatter plot representation that is of immediate utility to a range of biomedical and clinical settings.
Journal ArticleDOI
Multiparameter Flow Cytometry as a Powerful Tool
TL;DR: Interestingly, the recent comparison of flow cytometry with high throughput sequencing in B lymphoblastic leukemia suggests that increased assay sensitivity does not necessarily improve risk stratification at early time points and that the moderate sensitivity of current flow cytometric assays is adequate for this purpose.
References
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