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ClusterMap: Comparing analyses across multiple Single Cell RNA-Seq profiles

https://doi.org/10.1101/331330
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/j.cell.2015.05.002openalex-snapshot
Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets
inferredcites →https://doi.org/10.1016/j.chom.2015.11.002openalex-snapshot
Meta- and Orthogonal Integration of Influenza “OMICs” Data Defines a Role for UBR4 in Virus Budding
inferredcites →https://doi.org/10.1038/nbt.2859openalex-snapshot
The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells
inferredcites →https://doi.org/10.1038/nbt.4042openalex-snapshot
Multiplexed droplet single-cell RNA-sequencing using natural genetic variation
inferredcites →https://doi.org/10.1038/nbt.4091openalex-snapshot
Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors
inferredcites →https://doi.org/10.1038/nbt.4096openalex-snapshot
Integrating single-cell transcriptomic data across different conditions, technologies, and species
inferredcites →https://doi.org/10.1038/ncomms14049openalex-snapshot
Massively parallel digital transcriptional profiling of single cells
inferredcites →https://doi.org/10.1038/nmeth.2967openalex-snapshot
Bayesian approach to single-cell differential expression analysis
inferredcites →https://doi.org/10.1038/nmeth.3254openalex-snapshot
Inferring biological tasks using Pareto analysis of high-dimensional data
inferredcites →https://doi.org/10.1038/nmeth.4612openalex-snapshot
Bias, robustness and scalability in single-cell differential expression analysis
inferredcites →https://doi.org/10.1038/nmeth.4644openalex-snapshot
scmap: projection of single-cell RNA-seq data across data sets
inferredcites →https://doi.org/10.1038/s41467-017-01560-xopenalex-snapshot
Construction of developmental lineage relationships in the mouse mammary gland by single-cell RNA profiling
inferredcites →https://doi.org/10.1093/bioinformatics/btv325openalex-snapshot
Diffusion maps for high-dimensional single-cell analysis of differentiation data
inferredcites →https://doi.org/10.1093/bioinformatics/btv715openalex-snapshot
destiny : diffusion maps for large-scale single-cell data in R
inferredcites →https://doi.org/10.1093/bioinformatics/btx196openalex-snapshot
Removal of batch effects using distribution-matching residual networks
inferredcites →https://doi.org/10.1093/nar/gkw430openalex-snapshot
TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis
inferredcites →https://doi.org/10.1101/gad.1849509openalex-snapshot
Keeping abreast of the mammary epithelial hierarchy and breast tumorigenesis
inferredcites →https://doi.org/10.1186/s13059-014-0550-8openalex-snapshot
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
inferredcites →https://doi.org/10.1186/s13059-015-0805-zopenalex-snapshot
ZIFA: Dimensionality reduction for zero-inflated single-cell gene expression analysis
inferredcites →https://doi.org/10.1186/s13059-015-0844-5openalex-snapshot
MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data
inferredcites →https://doi.org/10.1186/s13059-016-0927-yopenalex-snapshot
Design and computational analysis of single-cell RNA-sequencing experiments
inferredcites →https://doi.org/10.1186/s13059-016-0930-3openalex-snapshot
Beyond comparisons of means: understanding changes in gene expression at the single-cell level

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1038/s41587-020-00803-5openalex-snapshot
Quantifying the effect of experimental perturbations at single-cell resolution
inferred← citeshttps://doi.org/10.1101/711929openalex-snapshot
Detection of differentially abundant cell subpopulations discriminates biological states in scRNA-seq data
inferred← citeshttps://doi.org/10.1186/s12964-026-03246-8openalex-snapshot
Intracellular Staphylococcus aureus triggers isolate-specific host transcriptional responses alongside TNF-R1 regulated cell fate decisions
inferred← citeshttps://doi.org/10.1186/s13059-020-1926-6openalex-snapshot
Eleven grand challenges in single-cell data science
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