Article

SMURF: embedding single-cell RNA-seq data with matrix factorization preserving self-consistency

2022-04-22

Abstract excerpt

The advance of single-cell RNA-sequencing (scRNA-seq) sheds light on cell-specific transcriptomic studies of cell developments, complex diseases, and cancers. Nevertheless, scRNA-seq techniques suffer from “dropout” events, and imputation tools are proposed to address the sparsity. Here, rather than imputation, we propose a tool, SMURF, to embed cells and genes into their latent space vectors utilizing matrix fact...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 440a025f-a29a-5cad-ae50-32e97668ae54
DOI: 10.1101/2022.04.22.489140

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

SMURF: embedding single-cell RNA-seq data with matrix factorization preserving self-consistencyDOI 10.1101/2022.04.22.489140Read

<b>McImpute</b> : Matrix completion based imputation for single cell RNA-seq dataSemantic proximity Read

Sincast: a computational framework to predict cell identities in single-cell transcriptomes using bulk atlases as references.Semantic proximity Read

SmartImpute: A Targeted Imputation Framework for Single-cell Transcriptome DataSemantic proximity Read

Varying-Censoring Aware Matrix Factorization for Single Cell RNA-SequencingSemantic proximity Read

Identifying hierarchical cell states and gene signatures with deep exponential families for single-cell transcriptomicsSemantic proximity Read

Detecting cell type from single cell RNA sequencing based on deep bi-stochastic graph regularized matrix factorizationSemantic proximity Read

Joint Gene Network Construction by Single-Cell RNA Sequencing DataSemantic proximity Read

CellDiffusion: a generative model to annotate single-cell and spatial RNA-seq using bulk referencesSemantic proximity Read

Self-supervised contrastive learning for integrative single cell RNA-seq data analysisSemantic proximity Read

Scalable probabilistic matrix factorization for single-cell RNA-seq analysisSemantic proximity Read

cellGeometry: ultra-fast single-cell deconvolution of bulk RNA-Seq using a geometric solutionSemantic proximity Read

A United Statistical Framework for Single Cell and Bulk Sequencing DataSemantic proximity Read