Article

SPECK: An Unsupervised Learning Approach for Cell Surface Receptor Abundance Estimation for Single Cell RNA-Sequencing Data

2022-10-09

Abstract excerpt

The rapid development of single cell transcriptomics has revolutionized the study of complex tissues. Single cell RNA-sequencing (scRNA-seq) can profile tens-of-thousands of dissociated cells from a tissue sample, enabling researchers to identify cell types, phenotypes and interactions that control tissue structure and function. A key requirement of these applications is the accurate estimation of cell surface pro...

Topics

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

Identifiers and source

Literature Corpus work: 69b351e8-45a1-539a-ae2b-0627399d84f5
DOI: 10.1101/2022.10.08.511197

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

SPECK: An Unsupervised Learning Approach for Cell Surface Receptor Abundance Estimation for Single Cell RNA-Sequencing DataDOI 10.1101/2022.10.08.511197Read

STREAK: A Supervised Cell Surface Receptor Abundance Estimation Strategy for Single Cell RNA-Sequencing Data using Feature Selection and Thresholded Gene Set ScoringSemantic proximity Read

Imputing abundance of over 2500 surface proteins from single-cell transcriptomes with context-agnostic zero-shot deep ensemblesSemantic proximity Read

Multimodal hierarchical classification of CITE-seq data delineates immune cell states across lineages and tissuesSemantic proximity Read

COVID-19db linkage maps of cell surface proteins and transcription factors in immune cellsSemantic proximity Read

Protein expression derived from scRNA-seq reveals lupus-induced acceleration of immune agingSemantic proximity Read

Mapping the nanoscale organization of the human cell surface proteome reveals new functional associations and surface antigen clustersSemantic proximity Read

Matrisome AnalyzeR – a suite of tools to annotate and quantify ECM molecules in big datasets across organismsSemantic proximity Read

SurfaceGenie: a web-based application for prioritizing cell-type specific marker candidatesSemantic proximity Read

Riemannian geometry and statistical modeling correct for batch effects and control false discoveries in single-cell surface protein count data from CITE-seqSemantic proximity Read

Addressing multiple facets of ligand-receptor network inference including single-cell proteomicsSemantic proximity Read

MatriCom: a scRNA-Seq data mining tool to infer ECM-ECM and cell-ECM communication systemsSemantic proximity Read

SPAT: Surface Protein Annotation ToolSemantic proximity Read