Literature DB >> 29269766

Science not art: statistically sound methods for identifying subsets in multi-dimensional flow and mass cytometry data sets.

Darya Y Orlova1, Leonore A Herzenberg1, Guenther Walther2.   

Abstract

Mesh：

Year:  2017        PMID： 29269766     DOI： 10.1038/nri.2017.150

Source DB:  PubMed          Journal:  Nat Rev Immunol        ISSN： 1474-1733            Impact factor:   53.106


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  5 in total

Review 1.  Computational flow cytometry: helping to make sense of high-dimensional immunology data.

Authors:  Yvan Saeys; Sofie Van Gassen; Bart N Lambrecht
Journal:  Nat Rev Immunol       Date:  2016-06-20       Impact factor: 53.106

2.  AutoGate: automating analysis of flow cytometry data.

Authors:  Stephen Meehan; Guenther Walther; Wayne Moore; Darya Orlova; Connor Meehan; David Parks; Eliver Ghosn; Megan Philips; Erin Mitsunaga; Jeffrey Waters; Aaron Kantor; Ross Okamura; Solomon Owumi; Yang Yang; Leonard A Herzenberg; Leonore A Herzenberg
Journal:  Immunol Res       Date:  2014-05       Impact factor: 2.829

3.  Earth Mover's Distance (EMD): A True Metric for Comparing Biomarker Expression Levels in Cell Populations.

Authors:  Darya Y Orlova; Noah Zimmerman; Stephen Meehan; Connor Meehan; Jeffrey Waters; Eliver E B Ghosn; Alexander Filatenkov; Gleb A Kolyagin; Yael Gernez; Shanel Tsuda; Wayne Moore; Richard B Moss; Leonore A Herzenberg; Guenther Walther
Journal:  PLoS One       Date:  2016-03-23       Impact factor: 3.240

4.  Automated mapping of phenotype space with single-cell data.

Authors:  Nikolay Samusik; Zinaida Good; Matthew H Spitzer; Kara L Davis; Garry P Nolan
Journal:  Nat Methods       Date:  2016-05-16       Impact factor: 28.547

5.  Cytofkit: A Bioconductor Package for an Integrated Mass Cytometry Data Analysis Pipeline.

Authors:  Hao Chen; Mai Chan Lau; Michael Thomas Wong; Evan W Newell; Michael Poidinger; Jinmiao Chen
Journal:  PLoS Comput Biol       Date:  2016-09-23       Impact factor: 4.475
  5 in total
  7 in total

1.  RefCell: multi-dimensional analysis of image-based high-throughput screens based on 'typical cells'.

Authors:  Yang Shen; Nard Kubben; Julián Candia; Alexandre V Morozov; Tom Misteli; Wolfgang Losert
Journal:  BMC Bioinformatics       Date:  2018-11-16       Impact factor: 3.169

2.  Automated subset identification and characterization pipeline for multidimensional flow and mass cytometry data clustering and visualization.

Authors:  Stephen Meehan; Gleb A Kolyagin; David Parks; Justin Youngyunpipatkul; Leonore A Herzenberg; Guenther Walther; Eliver E B Ghosn; Darya Y Orlova
Journal:  Commun Biol       Date:  2019-06-20

3.  Comprehensive multi-omics single-cell data integration reveals greater heterogeneity in the human immune system.

Authors:  Congmin Xu; Junkai Yang; Astrid Kosters; Benjamin R Babcock; Peng Qiu; Eliver E B Ghosn
Journal:  iScience       Date:  2022-09-13

4.  Mixed-effects association of single cells identifies an expanded effector CD4+ T cell subset in rheumatoid arthritis.

Authors:  Chamith Y Fonseka; Deepak A Rao; Nikola C Teslovich; Ilya Korsunsky; Susan K Hannes; Kamil Slowikowski; Michael F Gurish; Laura T Donlin; James A Lederer; Michael E Weinblatt; Elena M Massarotti; Jonathan S Coblyn; Simon M Helfgott; Derrick J Todd; Vivian P Bykerk; Elizabeth W Karlson; Joerg Ermann; Yvonne C Lee; Michael B Brenner; Soumya Raychaudhuri
Journal:  Sci Transl Med       Date:  2018-10-17       Impact factor: 19.319

5.  QFMatch: multidimensional flow and mass cytometry samples alignment.

Authors:  Darya Y Orlova; Stephen Meehan; David Parks; Wayne A Moore; Connor Meehan; Qian Zhao; Eliver E B Ghosn; Leonore A Herzenberg; Guenther Walther
Journal:  Sci Rep       Date:  2018-02-19       Impact factor: 4.379

6.  CytoBinning: Immunological insights from multi-dimensional data.

Authors:  Yang Shen; Benjamin Chaigne-Delalande; Richard W J Lee; Wolfgang Losert
Journal:  PLoS One       Date:  2018-10-31       Impact factor: 3.240

7.  New interpretable machine-learning method for single-cell data reveals correlates of clinical response to cancer immunotherapy.

Authors:  Evan Greene; Greg Finak; Leonard A D'Amico; Nina Bhardwaj; Candice D Church; Chihiro Morishima; Nirasha Ramchurren; Janis M Taube; Paul T Nghiem; Martin A Cheever; Steven P Fling; Raphael Gottardo
Journal:  Patterns (N Y)       Date:  2021-10-27
  7 in total

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