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Expression variation analysis for tumor heterogeneity in single-cell RNA-sequencing data

https://doi.org/10.1101/479287
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What this work says

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

inferredcites →https://doi.org/10.1002/cyto.b.21588openalex-snapshot
PhenoGraph and viSNE facilitate the identification of abnormal T‐cell populations in routine clinical flow cytometric data
inferredcites →https://doi.org/10.1007/s10479-011-0841-3openalex-snapshot
Multiobjective evolutionary algorithms to identify highly autocorrelated areas: the case of spatial distribution in financially compromised farms
inferredcites →https://doi.org/10.1016/j.cell.2017.10.023openalex-snapshot
Efficient Generation of Transcriptomic Profiles by Random Composite Measurements
inferredcites →https://doi.org/10.1016/j.cell.2017.10.044openalex-snapshot
Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer
inferredcites →https://doi.org/10.1016/j.cell.2018.05.060openalex-snapshot
Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment
inferredcites →https://doi.org/10.1016/j.cell.2018.05.061openalex-snapshot
Recovering Gene Interactions from Single-Cell Data Using Data Diffusion
inferredcites →https://doi.org/10.1016/j.cels.2015.12.004openalex-snapshot
The Molecular Signatures Database Hallmark Gene Set Collection
inferredcites →https://doi.org/10.1016/j.compbiolchem.2016.02.004openalex-snapshot
Gene expression variability in mammalian embryonic stem cells using single cell RNA-seq data
inferredcites →https://doi.org/10.1016/j.tig.2015.07.003openalex-snapshot
Single-Cell Analysis in Cancer Genomics
inferredcites →https://doi.org/10.1016/j.tig.2018.05.007openalex-snapshot
Harnessing Tumor Evolution to Circumvent Resistance
inferredcites →https://doi.org/10.1016/j.trecan.2018.02.003openalex-snapshot
Single-Cell Transcriptomic Analysis of Tumor Heterogeneity
inferredcites →https://doi.org/10.1038/nature10762openalex-snapshot
Clonal evolution in cancer
inferredcites →https://doi.org/10.1038/nature12625openalex-snapshot
The causes and consequences of genetic heterogeneity in cancer evolution
inferredcites →https://doi.org/10.1038/nature12627openalex-snapshot
Tumour heterogeneity in the clinic
inferredcites →https://doi.org/10.1038/nbt.2594openalex-snapshot
viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia
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/nrc3036openalex-snapshot
Of cancer and cave fish
inferredcites →https://doi.org/10.1073/pnas.1721628115openalex-snapshot
Digitizing omics profiles by divergence from a baseline
inferredcites →https://doi.org/10.1093/bioinformatics/bts034openalex-snapshot
The sva package for removing batch effects and other unwanted variation in high-throughput experiments
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/biostatistics/kxj037openalex-snapshot
Adjusting batch effects in microarray expression data using empirical Bayes methods
inferredcites →https://doi.org/10.1093/nar/gkv007openalex-snapshot
limma powers differential expression analyses for RNA-sequencing and microarray studies
inferredcites →https://doi.org/10.1101/120378openalex-snapshot
Visualizing Structure and Transitions for Biological Data Exploration
inferredcites →https://doi.org/10.1101/378950openalex-snapshot
Comprehensive analysis of retinal development at single cell resolution identifies NFI factors as essential for mitotic exit and specification of late-born cells
inferredcites →https://doi.org/10.1172/jci.insight.122092openalex-snapshot
T cell receptor repertoire features associated with survival in immunotherapy-treated pancreatic ductal adenocarcinoma
inferredcites →https://doi.org/10.1172/jci.insight.89829openalex-snapshot
The head and neck cancer immune landscape and its immunotherapeutic implications
inferredcites →https://doi.org/10.1186/1471-2105-13-272openalex-snapshot
Gene expression anti-profiles as a basis for accurate universal cancer signatures
inferredcites →https://doi.org/10.1186/s12859-016-1176-5openalex-snapshot
FastProject: a tool for low-dimensional analysis of single-cell RNA-Seq data
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/s13059-017-1305-0openalex-snapshot
Splatter: simulation of single-cell RNA sequencing data
inferredcites →https://doi.org/10.1371/journal.pcbi.1000792openalex-snapshot
Identifying Tightly Regulated and Variably Expressed Networks by Differential Rank Conservation (DIRAC)
inferredcites →https://doi.org/10.1371/journal.pone.0056823openalex-snapshot
Molecular Subtypes in Head and Neck Cancer Exhibit Distinct Patterns of Chromosomal Gain and Loss of Canonical Cancer Genes
inferredcites →https://doi.org/10.18547/gcb.2017.vol3.iss1.e46openalex-snapshot
Bayesian Inference for Single-cell Clustering and Imputing
inferredcites →https://doi.org/10.21105/joss.00861openalex-snapshot
UMAP: Uniform Manifold Approximation and Projection
inferredcites →https://doi.org/10.3390/ijms19051532openalex-snapshot
Fibroblasts in the Tumor Microenvironment: Shield or Spear?
inferredcites →https://doi.org/10.3892/or.2017.5536openalex-snapshot
Clinical significance of T cell clonality and expression levels of immune-related genes in endometrial cancer
inferredcites →https://doi.org/10.4137/cin.s14066openalex-snapshot
Learning Dysregulated Pathways in Cancers from Differential Variability Analysis
inferredcites →https://doi.org/10.4137/cin.s23862openalex-snapshot
Gene Expression Signatures Based on Variability can Robustly Predict Tumor Progression and Prognosis
inferredcites →https://doi.org/10.48550/arxiv.1802.03426openalex-snapshot
UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction

What points at this work

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

inferred← citeshttps://doi.org/10.1016/j.neuron.2019.04.010openalex-snapshot
Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification
inferred← citeshttps://doi.org/10.1016/j.oraloncology.2019.104441openalex-snapshot
Single-cell sequencing and its applications in head and neck cancer
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