ChIP-Atlas 2025 update: Enhanced quality control and expanded epigenomic data-mining platform marks 10-year milestone
By
Zou, Zhaonan, Ohta, Tazro, Kasukawa, Takeya, Oki, Shinya
Pure flour-power. Hearty enough to carry you through lunch.
Summary
ChIP-Atlas, a data-mining platform for epigenomic profiling data, celebrates its 10-year anniversary with a 2025 update. The platform processes and integrates public epigenomic data (ChIP-seq, ATAC-seq, DNase-seq, Bisulfite-seq) from over 460,000 experiments across multiple model organisms. The update introduces an experiment-level quality control framework for assessing data reliability, plus a parametric analysis of gene set enrichment-based methods. The platform serves as a critical resource for exploring the epigenomic landscape.
Key quotes
· 3 pulledChIP-Atlas (https://chip-atlas.org/) is a data-mining platform that systematically processes and integrates public epigenomic profiling data, including ChIP-seq, ATAC-seq, DNase-seq, and Bisulfite-seq, together with curated sample metadata, currently encompassing >460 000 experiments across multiple model organisms.
In this 2025 update, an experiment-level quality control framework was embedded in every experiment page, enabling intuitive assessment of data reliability and representativeness.
In addition, a parametric analysis of gene set enrichment-based mod
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