Published in BMC Bioinformatics on May 14, 2009
Data reduction for spectral clustering to analyze high throughput flow cytometry data. BMC Bioinformatics (2010) 2.46
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Analysis of cell cycle by flow cytometry. Methods Mol Biol (2004) 1.98
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Using flowViz to visualize flow cytometry data. Bioinformatics (2008) 1.79
Performance of plate-based cytokine flow cytometry with automated data analysis. BMC Immunol (2003) 1.66
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Critical role of flow cytometry in evaluating peripheral blood hematopoietic stem cell grafts. Cytometry A (2004) 1.04
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DNA histogram analysis for node-negative breast cancer. Cytometry A (2004) 0.94
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A new spreadsheet method for the analysis of bivariate flow cytometric data. BMC Cell Biol (2004) 0.88
Model-based analysis of tiling-arrays for ChIP-chip. Proc Natl Acad Sci U S A (2006) 13.68
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Automated gating of flow cytometry data via robust model-based clustering. Cytometry A (2008) 5.10
Development of FuGO: an ontology for functional genomics investigations. OMICS (2006) 3.59
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Rapid cell population identification in flow cytometry data. Cytometry A (2011) 2.57
Data reduction for spectral clustering to analyze high throughput flow cytometry data. BMC Bioinformatics (2010) 2.46
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The Thai Phase III HIV Type 1 Vaccine trial (RV144) regimen induces antibodies that target conserved regions within the V2 loop of gp120. AIDS Res Hum Retroviruses (2012) 1.94
Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments. Bioinformatics (2012) 1.93
A genome scan for modifiers of age at onset in Huntington disease: The HD MAPS study. Am J Hum Genet (2003) 1.85
Gating-ML: XML-based gating descriptions in flow cytometry. Cytometry A (2008) 1.78
Hematopoietic stem cell subtypes expand differentially during development and display distinct lymphopoietic programs. Cell Stem Cell (2012) 1.71
Identification of a novel gene (HSN2) causing hereditary sensory and autonomic neuropathy type II through the Study of Canadian Genetic Isolates. Am J Hum Genet (2004) 1.70
Analysis of V2 antibody responses induced in vaccinees in the ALVAC/AIDSVAX HIV-1 vaccine efficacy trial. PLoS One (2013) 1.65
Optimizing transformations for automated, high throughput analysis of flow cytometry data. BMC Bioinformatics (2010) 1.64
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Global panel of HIV-1 Env reference strains for standardized assessments of vaccine-elicited neutralizing antibodies. J Virol (2013) 1.51
A survey of flow cytometry data analysis methods. Adv Bioinformatics (2009) 1.51
High-throughput flow cytometry data normalization for clinical trials. Cytometry A (2013) 1.47
Early immunologic correlates of HIV protection can be identified from computational analysis of complex multivariate T-cell flow cytometry assays. Bioinformatics (2012) 1.46
Data quality assessment of ungated flow cytometry data in high throughput experiments. Cytometry A (2007) 1.42
PICS: probabilistic inference for ChIP-seq. Biometrics (2011) 1.37
Diffuse large B-cell lymphoma: reduced CD20 expression is associated with an inferior survival. Blood (2008) 1.36
RchyOptimyx: cellular hierarchy optimization for flow cytometry. Cytometry A (2012) 1.35
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Flexible empirical Bayes models for differential gene expression. Bioinformatics (2006) 1.28
Lateral gene transfer and ancient paralogy of operons containing redundant copies of tryptophan-pathway genes in Xylella species and in heterocystous cyanobacteria. Genome Biol (2003) 1.26
Mixture models for single-cell assays with applications to vaccine studies. Biostatistics (2013) 1.21
Data File Standard for Flow Cytometry, version FCS 3.1. Cytometry A (2010) 1.21
Evidence for a modifier of onset age in Huntington disease linked to the HD gene in 4p16. Neurogenetics (2004) 1.19
FCGR2C polymorphisms associate with HIV-1 vaccine protection in RV144 trial. J Clin Invest (2014) 1.18
Properties of CD34+ CML stem/progenitor cells that correlate with different clinical responses to imatinib mesylate. Blood (2010) 1.17
Automated analysis of multidimensional flow cytometry data improves diagnostic accuracy between mantle cell lymphoma and small lymphocytic lymphoma. Am J Clin Pathol (2012) 1.12
An integrated pipeline for the genome-wide analysis of transcription factor binding sites from ChIP-Seq. PLoS One (2011) 1.08
Highly multiplexed quantitation of gene expression on single cells. J Immunol Methods (2013) 1.07
Therapeutic vaccination expands and improves the function of the HIV-specific memory T-cell repertoire. J Infect Dis (2013) 1.07
rMAT--an R/Bioconductor package for analyzing ChIP-chip experiments. Bioinformatics (2010) 1.04
The LIFEdb database in 2006. Nucleic Acids Res (2006) 1.04
Computational resources for high-dimensional immune analysis from the Human Immunology Project Consortium. Nat Biotechnol (2014) 1.02
Correlation analysis of intracellular and secreted cytokines via the generalized integrated mean fluorescence intensity. Cytometry A (2010) 1.02
Probabilistic inference for nucleosome positioning with MNase-based or sonicated short-read data. PLoS One (2012) 1.00
An integrated hierarchical Bayesian model for multivariate eQTL mapping. Stat Appl Genet Mol Biol (2012) 0.99
The luminal progenitor compartment of the normal human mammary gland constitutes a unique site of telomere dysfunction. Stem Cell Reports (2013) 0.99
Heart structure-specific transcriptomic atlas reveals conserved microRNA-mRNA interactions. PLoS One (2013) 0.96
A computational framework for the analysis of peptide microarray antibody binding data with application to HIV vaccine profiling. J Immunol Methods (2013) 0.93
GenePattern flow cytometry suite. Source Code Biol Med (2013) 0.93
Identification of Dlk1-Dio3 imprinted gene cluster noncoding RNAs as novel candidate biomarkers for liver tumor promotion. Toxicol Sci (2012) 0.92
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Functional profiling: from microarrays via cell-based assays to novel tumor relevant modulators of the cell cycle. Cancer Res (2005) 0.92
QUAliFiER: an automated pipeline for quality assessment of gated flow cytometry data. BMC Bioinformatics (2012) 0.91
Integration of lyoplate based flow cytometry and computational analysis for standardized immunological biomarker discovery. PLoS One (2013) 0.91
FlowRepository: a resource of annotated flow cytometry datasets associated with peer-reviewed publications. Cytometry A (2012) 0.90
Evaluation of the host transcriptional response to human cytomegalovirus infection. Physiol Genomics (2004) 0.90
Enhanced flowType/RchyOptimyx: a BioConductor pipeline for discovery in high-dimensional cytometry data. Bioinformatics (2014) 0.89
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The phenotypic distribution and functional profile of tuberculin-specific CD4 T-cells characterizes different stages of TB infection. Cytometry B Clin Cytom (2012) 0.87
Computational analysis optimizes the flow cytometric evaluation for lymphoma. Cytometry B Clin Cytom (2013) 0.85
B cells with high side scatter parameter by flow cytometry correlate with inferior survival in diffuse large B-cell lymphoma. Am J Clin Pathol (2012) 0.84
Distinct but phenotypically heterogeneous human cell populations produce rapid recovery of platelets and neutrophils after transplantation. Blood (2012) 0.83
Recent bioinformatics advances in the analysis of high throughput flow cytometry data. Adv Bioinformatics (2010) 0.82
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A pipeline for automated analysis of flow cytometry data: preliminary results on lymphoma sub-type diagnosis. Conf Proc IEEE Eng Med Biol Soc (2009) 0.81
PING 2.0: an R/Bioconductor package for nucleosome positioning using next-generation sequencing data. Bioinformatics (2013) 0.80
Analysis of High-Throughput Flow Cytometry Data Using plateCore. Adv Bioinformatics (2009) 0.79
High-throughput flow cytometry-based assay to identify apoptosis-inducing proteins. J Biomol Screen (2007) 0.79
iFlow: A Graphical User Interface for Flow Cytometry Tools in Bioconductor. Adv Bioinformatics (2009) 0.79
Scoring relevancy of features based on combinatorial analysis of Lasso with application to lymphoma diagnosis. BMC Genomics (2013) 0.78
Computational methods for early predictive safety assessment from biological and chemical data. Expert Opin Drug Metab Toxicol (2011) 0.78
FuGEFlow: data model and markup language for flow cytometry. BMC Bioinformatics (2009) 0.77
Flexible mixture modeling via the multivariate t distribution with the Box-Cox transformation: an alternative to the skew-t distribution. Stat Comput (2012) 0.77
Computational analysis optimizes the flow cytometric evaluation for lymphoma. Cytometry B Clin Cytom (2013) 0.77
iBMQ: a R/Bioconductor package for integrated Bayesian modeling of eQTL data. Bioinformatics (2013) 0.76
FCS 3.1 Implementation guidance. Cytometry A (2012) 0.75
Correction: Musosal effects for tenofovir 1% gel. Elife (2015) 0.75
Modeling breast cell cycle regulation--overcoming drug resistance. Conf Proc IEEE Eng Med Biol Soc (2006) 0.75
Reduction in multi-lineage and erythroid progenitors distinguishes myelodysplastic syndromes from non-malignant cytopenias. Leuk Res (2009) 0.75