ArticleNature communications2022
CytofIn enables integrated analysis of public mass cytometry datasets using generalized anchors.
Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
What it found
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Who cites it
10 citing papers in PubMed.
- CytoBatchFlagR: A Comprehensive Framework to Objectively Assess High-Parameter Cytometry Data for Batch Effects.Cytometry. Part A : the journal of the International Society for Analytical Cytology · 2026Article
- cytoGPNet: Enhancing clinical outcome prediction accuracy using longitudinal cytometry data in small cohort studies.Patterns (New York, N.Y.) · 2025Article
- Comprehensive evaluation and practical guideline of gating methods for high-dimensional cytometry data: manual gating, unsupervised clustering, and auto-gating.Briefings in bioinformatics · 2024Article
- Spatiotemporal metabolomic approaches to the cancer-immunity panorama: a methodological perspective.Molecular cancer · 2024Review
- Approaching Mass Cytometry Translational Studies by Experimental and Data Curation Settings.Methods in molecular biology (Clifton, N.J.) · 2024Review
- Cross-species comparative analysis of single presynapses.Scientific reports · 2023Article
- Computational Methods for Single-Cell Proteomics.Annual review of biomedical data science · 2023Review
- Single-cell technologies uncover intra-tumor heterogeneity in childhood cancers.Seminars in immunopathology · 2023Review
- Article
- CytofIn enables integrated analysis of public mass cytometry datasets using generalized anchors.Nature communications · 2022Article
Corrections and comments
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Authors and funding
13 authors.
Funding
Abstract
The increasing use of mass cytometry for analyzing clinical samples offers the possibility to perform comparative analyses across public datasets. However, challenges in batch normalization and data integration limit the comparison of datasets not intended to be analyzed together. Here, we present a data integration strategy, CytofIn, using generalized anchors to integrate mass cytometry datasets from the public domain. We show that low-variance controls, such as healthy samples and stable channels, are inherently homogeneous, robust against stimulation, and can serve as generalized anchors for batch correction. Single-cell quantification comparing mass cytometry data from 989 leukemia files pre- and post normalization with CytofIn demonstrates effective batch correction while recapitulating the gold-standard bead normalization. CytofIn integration of public cancer datasets enabled the comparison of immune features across histologies and treatments. We demonstrate the ability to integrate public datasets without necessitating identical control samples or bead standards for fast and robust analysis using CytofIn.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.