Quantitative measures to assess the quality of cellular indexing of transcriptomes and epitopes by sequencing data.

ABSTRACT:

Background

Cellular indexing of transcriptomes and epitopes by sequencing (CITE-Seq) is a powerful technique to simultaneously measure gene expression and cell surface protein abundances in individual cells. To obtain accurate and reliable biological findings from CITE-Seq data, it is critical to ensure rigorous quality control (QC). However, no public method has yet been developed for CITE-Seq QC.

Results

In this study, we propose the first software package for multi-layered, systemic, and quantitative quality control (CITESeQC). Recognizing the multi-layered nature of CITE-Seq data, CITESeQC performs QC across gene expressions, surface proteins, and their interactions. It systemically evaluates all genes and protein markers assayed in the data and filters out some of them

SUBMITTER: Sun J 

PROVIDER: S-EPMC12488637 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature