Work

domino2: data for a reproducible example

Year: 2023

Type: dataset

Abstract: This repository hosts example data for reproducible analysis of intra- and intercellular signaling in single cell RNA sequencing (scRNAseq) data based on transcription factor (TF) activation. We demonstrate analysis using domino2 on the 10X Genomics Peripheral Blood Mononuclear Cells (PBMC) data set of 2,700 cells PBMC3K. scRNA-seq data is preprocessed following the Satija Lab's Guided Clustering Tutorial. Quantification of TF activation is conducted using pySCENIC. For more details on how this analysis is conducted, please refer to the vignettes in the domino2 package.

Source: Zenodo (CERN European Organization for Nuclear Research)

DOI: 10.5281/zenodo.10124865

Author: Mitchell, Jacob T.

Institution: Johns Hopkins University

Language: English

Topic: Single-cell and spatial transcriptomics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

OpenAlex ID: W4393923113

Cites:

Cited by:

Related to: 10