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A benchmark for evaluation of algorithms for identification of cellular correlates of clinical outcomes.
Aghaeepour, Nima; Chattopadhyay, Pratip; Chikina, Maria; Dhaene, Tom; Van Gassen, Sofie; Kursa, Miron; Lambrecht, Bart N; Malek, Mehrnoush; McLachlan, G J; Qian, Yu; Qiu, Peng; Saeys, Yvan; Stanton, Rick; Tong, Dong; Vens, Celine; Walkowiak, Slawomir; Wang, Kui; Finak, Greg; Gottardo, Raphael; Mosmann, Tim; Nolan, Garry P; Scheuermann, Richard H; Brinkman, Ryan R.
Afiliação
  • Aghaeepour N; Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, British Columbia, Canada.
  • Chattopadhyay P; Department of Medical Genetics, University of British Columbia, Vancouver, British Columbia, Canada.
  • Chikina M; Baxter Laboratory in Stem Cell Biology, Stanford University, Stanford, California.
  • Dhaene T; ImmunoTechnology Section, Vaccine Research Center, National Institutes of Health, Washington, DC.
  • Van Gassen S; Department Computational and Systems Biology, University of Pittsburgh, Pittsburg, Pennsylvania.
  • Kursa M; Department of Information Technology, Ghent University-iMinds, Ghent, Belgium.
  • Lambrecht BN; Department of Information Technology, Ghent University-iMinds, Ghent, Belgium.
  • Malek M; Inflammation Research Center, VIB, Ghent, Belgium.
  • McLachlan GJ; Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.
  • Qian Y; Interdisciplinary Centre for Mathematical and Computational Modelling, University of Warsaw, Warsaw, Poland.
  • Qiu P; Inflammation Research Center, VIB, Ghent, Belgium.
  • Saeys Y; Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.
  • Stanton R; Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, British Columbia, Canada.
  • Tong D; Department of Statistics, University of Queensland, St. Lucia, Brisbane, Australia 4072.
  • Vens C; J. Craig Venter Institute, La Jolla, California.
  • Walkowiak S; Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, Georgia.
  • Wang K; Inflammation Research Center, VIB, Ghent, Belgium.
  • Finak G; Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.
  • Gottardo R; J. Craig Venter Institute, La Jolla, California.
  • Mosmann T; The John Van Geest Cancer Research Centre, Nottingham Trent University, Nottingham, United Kingdom.
  • Nolan GP; Centre for Genomic and Experimental Medicine, Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, United Kingdom.
  • Scheuermann RH; Inflammation Research Center, VIB, Ghent, Belgium.
  • Brinkman RR; Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.
Cytometry A ; 89(1): 16-21, 2016 Jan.
Article em En | MEDLINE | ID: mdl-26447924
ABSTRACT
The Flow Cytometry Critical Assessment of Population Identification Methods (FlowCAP) challenges were established to compare the performance of computational methods for identifying cell populations in multidimensional flow cytometry data. Here we report the results of FlowCAP-IV where algorithms from seven different research groups predicted the time to progression to AIDS among a cohort of 384 HIV+ subjects, using antigen-stimulated peripheral blood mononuclear cell (PBMC) samples analyzed with a 14-color staining panel. Two approaches (FlowReMi.1 and flowDensity-flowType-RchyOptimyx) provided statistically significant predictive value in the blinded test set. Manual validation of submitted results indicated that unbiased analysis of single cell phenotypes could reveal unexpected cell types that correlated with outcomes of interest in high dimensional flow cytometry datasets.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Linfócitos T / Síndrome da Imunodeficiência Adquirida / Progressão da Doença / Biologia Computacional / Benchmarking / Citometria de Fluxo Tipo de estudo: Diagnostic_studies / Prognostic_studies Limite: Humans Idioma: En Revista: Cytometry A Ano de publicação: 2016 Tipo de documento: Article País de afiliação: Canadá
Texto completo
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Linfócitos T / Síndrome da Imunodeficiência Adquirida / Progressão da Doença / Biologia Computacional / Benchmarking / Citometria de Fluxo Tipo de estudo: Diagnostic_studies / Prognostic_studies Limite: Humans Idioma: En Revista: Cytometry A Ano de publicação: 2016 Tipo de documento: Article País de afiliação: Canadá