TIMEOR: a web-based tool to uncover temporal regulatory mechanisms from multi-omics data.

ABSTRACT: Uncovering how transcription factors regulate their targets at DNA, RNA and protein levels over time is critical to define gene regulatory networks (GRNs) and assign mechanisms in normal and diseased states. RNA-seq is a standard method measuring gene regulation using an established set of analysis stages. However, none of the currently available pipeline methods for interpreting ordered genomic data (in time or space) use time-series models to assign cause and effect relationships within GRNs, are adaptive to diverse experimental designs, or enable user interpretation through a web-based platform. Furthermore, methods integrating ordered RNA-seq data with protein-DNA binding data to distinguish direct from indirect interactions are urgently needed. We present TIMEOR (Trajectory Inference

SUBMITTER: Conard AM 

PROVIDER: S-EPMC8262710 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature