Predicting cell population-specific gene expression from genomic sequence.

ABSTRACT: Most regulatory elements, especially enhancer sequences, are cell population-specific. One could even argue that a distinct set of regulatory elements is what defines a cell population. However, discovering which non-coding regions of the DNA are essential in which context, and as a result, which genes are expressed, is a difficult task. Some computational models tackle this problem by predicting gene expression directly from the genomic sequence. These models are currently limited to predicting bulk measurements and mainly make tissue-specific predictions. Here, we present a model that leverages single-cell RNA-sequencing data to predict gene expression. We show that cell population-specific models outperform tissue-specific models, especially when the expression profile of a cell populat

SUBMITTER: Michielsen L 

PROVIDER: S-EPMC10944912 | biostudies-literature | 2024

REPOSITORIES: biostudies-literature