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Updated: May 5, 2026

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Massively Parallel Reporter Assays in Cultured Mammalian Cells

Published on: August 17, 2014

MPRAbase a Massively Parallel Reporter Assay database.

Jingjing Zhao¹, Fotis A Baltoumas², Maxwell A Konnaris³

¹University of California San Francisco.

Genome Research

|April 22, 2025

Summary

This summary is machine-generated.

MPRAbase is a new database for Massively parallel reporter assays (MPRAs). It centralizes data from 130 experiments, covering over 17 million regulatory elements, making MPRA data more accessible for research.

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Area of Science:

Genomics and Molecular Biology
Bioinformatics and Computational Biology

Background:

Massively parallel reporter assays (MPRAs) are high-throughput technologies for assessing gene regulatory activity.
MPRAs have diverse applications, including regulatory element discovery and variant effect analysis.
A lack of a centralized, comprehensive database for MPRA results hinders data accessibility and integration.

Purpose of the Study:

To develop MPRAbase, a manually curated database consolidating MPRA experimental results.
To provide a user-friendly platform for accessing and analyzing MPRA data across various contexts.

Main Methods:

Manual curation of data from 130 published MPRA experiments.
Integration of information on 17,718,677 tested elements, 35 cell types, and 4 organisms.
Development of a web interface for data exploration and download.

Main Results:

MPRAbase currently contains data from 130 MPRA experiments.
The database encompasses over 17.7 million regulatory elements analyzed across diverse biological systems.
A centralized, accessible web interface has been established for public use.

Conclusions:

MPRAbase addresses the need for a comprehensive repository of MPRA data.
The database facilitates the examination and download of regulatory element activity data.
MPRAbase will support further research in gene regulation, variant analysis, and evolutionary genomics.