ArticleGenome biology2021
MultiK: an automated tool to determine optimal cluster numbers in single-cell RNA sequencing data.
Article in Genome biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- The petal identity geneeLife · 2026Article
- gLeiden: accelerated community detection algorithms using directed and undirected graphs on GPUs.Bioinformatics advances · 2026Article
- scHLens: a web server for hierarchically and interactively exploring single cell RNA-seq data.Briefings in bioinformatics · 2025Article
- Single-cell transcriptomics reveals biomarker heterogeneity linked to CDK4/6 Inhibitor resistance in breast cancer cell lines.NPJ breast cancer · 2025Article
- scICE: enhancing clustering reliability and efficiency of scRNA-seq data with multi-cluster label consistency evaluation.Nature communications · 2025Article
- FABP7 is increased in progressive multiple sclerosis and induces a pro-inflammatory phenotype in monocytes through a glycolytic switch.Nature communications · 2025Article
- Age-dependent differences in breast tumor microenvironment: challenges and opportunities for efficacy studies in preclinical models.Cell death and differentiation · 2025Article
- Navigating single-cell RNA-sequencing: protocols, tools, databases, and applications.Genomics & informatics · 2025Review
- Crafted experiments to evaluate feature selection methods for single-cell RNA-seq data.NAR genomics and bioinformatics · 2025Article
- Defining the regulatory logic of breast cancer using single-cell epigenetic and transcriptome profiling.Cell genomics · 2025Article
- Optimization of clustering parameters for single-cell RNA analysis using intrinsic goodness metrics.Frontiers in bioinformatics · 2025Article
- IDclust: Iterative clustering for unsupervised identification of cell types with single cell transcriptomics and epigenomics.NAR genomics and bioinformatics · 2024Article
- ClusterMatch aligns single-cell RNA-sequencing data at the multi-scale cluster level via stable matching.Bioinformatics (Oxford, England) · 2024Article
- Building and analyzing metacells in single-cell genomics data.Molecular systems biology · 2024Review
- Exploring the role of CD8FEBS open bio · 2024Article
- Defining the Regulatory Logic of Breast Cancer Using Single-Cell Epigenetic and Transcriptome Profiling.bioRxiv : the preprint server for biology · 2024Article
- scLENS: data-driven signal detection for unbiased scRNA-seq data analysis.Nature communications · 2024Article
- Integrating Single-Cell RNA-Seq and Bulk RNA-Seq Data to Explore the Key Role of Fatty Acid Metabolism in Breast Cancer.International journal of molecular sciences · 2023Article
- Sub-Cluster Identification through Semi-Supervised Optimization of Rare-Cell Silhouettes (SCISSORS) in single-cell RNA-sequencing.Bioinformatics (Oxford, England) · 2023Article
- Cytocipher determines significantly different populations of cells in single-cell RNA-seq data.Bioinformatics (Oxford, England) · 2023Article
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Authors and funding
5 authors.
Funding
Abstract
Single-cell RNA sequencing (scRNA-seq) provides new opportunities to characterize cell populations, typically accomplished through some type of clustering analysis. Estimation of the optimal cluster number (K) is a crucial step but often ignored. Our approach improves most current scRNA-seq cluster methods by providing an objective estimation of the number of groups using a multi-resolution perspective. MultiK is a tool for objective selection of insightful Ks and achieves high robustness through a consensus clustering approach. We demonstrate that MultiK identifies reproducible groups in scRNA-seq data, thus providing an objective means to estimating the number of possible groups or cell-type populations present.
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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.