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A benchmark for evaluation of algorithms for identification of cellular correlates of clinical outcomes.. Cytometry. Part A : the journal of the International Society for Analytical Cytology.. 2015.
Critical assessment of automated flow cytometry data analysis techniques.. Nature methods. 10(3):228-38.. 2013.
B cells with high side scatter parameter by flow cytometry correlate with inferior survival in diffuse large B-cell lymphoma.. American journal of clinical pathology. 137(5):805-14.. 2012.
State-of-the-Art in the Computational Analysis of Cytometry Data.. Cytometry. Part A : the journal of the International Society for Analytical Cytology. 87(7):591-3.. 2015.
On-line changepoint detection and parameter estimation with application to genomic data. Statistics and Computing. 22(2):579-595.. 2012.
Therapeutic Vaccination Expands and Improves the Function of the HIV-Specific Memory T-Cell Repertoire.. The Journal of infectious diseases.. 2013.
flowCL: ontology-based cell population labelling in flow cytometry.. Bioinformatics (Oxford, England). 31(8):1337-9.. 2015.
Global Panel of HIV-1 Env Reference Strains for Standardized Assessments of Vaccine-Elicited Neutralizing Antibodies.. Journal of virology. 88(5):2489-507.. 2014.
Highly multiplexed quantitation of gene expression on single cells.. Journal of immunological methods. 391(1-2):133-45.. 2013.
Comprehensive sieve analysis of breakthrough HIV-1 sequences in the RV144 vaccine efficacy trial.. PLoS computational biology. 11(2):e1003973.. 2015.
Mixture models for single-cell assays with applications to vaccine studies.. Biostatistics (Oxford, England).. 2013.
QUAliFiER: An automated pipeline for quality assessment of gated flow cytometry data.. BMC bioinformatics. 13(1):252.. 2012.
High-throughput flow cytometry data normalization for clinical trials.. Cytometry. Part A : the journal of the International Society for Analytical Cytology.. 2013.
Optimizing transformations for automated, high throughput analysis of flow cytometry data.. BMC bioinformatics. 11:546.. 2010.
Analysis of HLAA*02 association with vaccine efficacy in the RV144 HIV-1 vaccine trial.. Journal of virology.. 2014.
Mucosal effects of tenofovir 1% gel.. eLife. 4. 2015.
Comparability and reproducibility of biomedical data.. Briefings in bioinformatics.. 2012.
Orchestrating high-throughput genomic analysis with Bioconductor.. Nature methods. 12(2):115-21.. 2015.
Analyzing Peptide Microarray Data with the R pepStat Package.. Methods in molecular biology (Clifton, N.J.). 1352:127-42.. 2016.
iBMQ: a R/Bioconductor package for integrated Bayesian modeling of eQTL data.. Bioinformatics (Oxford, England).. 2013.
A computational framework for the analysis of peptide microarray antibody binding data with application to HIV vaccine profiling.. Journal of immunological methods.. 2013.
The Thai Phase III HIV Type 1 Vaccine Trial (RV144) Regimen Induces Antibodies That Target Conserved Regions Within the V2 Loop of gp120.. AIDS research and human retroviruses. 28(11):1444-57.. 2012.
Identification and visualization of multidimensional antigen-specific T-cell populations in polychromatic cytometry data.. Cytometry. Part A : the journal of the International Society for Analytical Cytology.. 2015.
COMPASS identifies T-cell subsets correlated with clinical outcomes.. Nature biotechnology.. 2015.
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