Scripts and data for the paper: Consequences and opportunities arising due to sparser single-cell RNA-seq datasets

DOI:10.4121/424eea7a-cce9-4dbb-b6ef-e5b47e132410.v1
The DOI displayed above is for this specific version of this dataset, which is currently the latest. Newer versions may be published in the future. For a link that will always point to the latest version, please use
DOI: 10.4121/424eea7a-cce9-4dbb-b6ef-e5b47e132410
Datacite citation style:
Bouland, Gerard; Reinders, Marcel; Mahfouz, Ahmed (2024): Scripts and data for the paper: Consequences and opportunities arising due to sparser single-cell RNA-seq datasets. Version 1. 4TU.ResearchData. dataset. https://doi.org/10.4121/424eea7a-cce9-4dbb-b6ef-e5b47e132410.v1
Other citation styles (APA, Harvard, MLA, Vancouver, Chicago, IEEE) available at Datacite

Dataset

Scripts and data for the paper: Consequences and opportunities arising due to sparser single-cell RNA-seq datasets


With the number of cells measured in single-cell RNA sequencing (scRNA-seq) datasets increasing exponentially and concurrent increased sparsity due to more zero counts being measured for many genes, we demonstrate here that downstream analyses on binary-based gene expression give similar results as count-based analyses. Moreover, a binary representation scales up to ~ 50-fold more cells that can be analyzed using the same computational resources. We also highlight the possibilities provided by binarized scRNA-seq data. Development of specialized tools for bit-aware implementations of downstream analytical tasks will enable a more fine-grained resolution of biological heterogeneity.

History

  • 2024-10-15 first online, published, posted

Publisher

4TU.ResearchData

Format

R/.rds R/.R spreadsheet/.csv

Organizations

TU Delft, Faculty of Electrical Engineering, Mathematics, and Computer Science, The Delft Bioinformatics Lab
Leiden University Medical Center, Department of Human Genetics

DATA - not available

Data and scripts already publically available at Zenodo and Github (see references)