Genes, Vol. 15, Pages 268: Cross-Omic Transcription Factor Analysis: An Insight on Transcription Factor Accessibility and Expression Correlation

Genes, Vol. 15, Pages 268: Cross-Omic Transcription Factor Analysis: An Insight on Transcription Factor Accessibility and Expression Correlation
Genes doi: 10.3390/genes15030268
Authors:
Lorenzo Martini
Roberta Bardini
Alessandro Savino
Stefano Di Carlo

It is well known how sequencing technologies propelled cellular biology research in recent years, providing incredible insight into the basic mechanisms of cells. Single-cell RNA sequencing is at the front in this field, with single-cell ATAC sequencing supporting it and becoming more popular. In this regard, multi-modal technologies play a crucial role, allowing the possibility to simultaneously perform the mentioned sequencing modalities on the same cells. Yet, there still needs to be a clear and dedicated way to analyze these multi-modal data. One of the current methods is to calculate the Gene Activity Matrix (GAM), which summarizes the accessibility of the genes at the genomic level, to have a more direct link with the transcriptomic data. However, this concept is not well defined, and it is unclear how various accessible regions impact the expression of the genes. Moreover, the transcription process is highly regulated by the transcription factors that bind to the different DNA regions. Therefore, this work presents a continuation of the meta-analysis of Genomic-Annotated Gene Activity Matrix (GAGAM) contributions, aiming to investigate the correlation between the TF expression and motif information in the ...

Source: Genes - February 21, 2024 Category: Genetics & Stem Cells Authors: Lorenzo Martini Roberta Bardini Alessandro Savino Stefano Di Carlo Tags: Article Source Type: research