ReMap

ReMap provides comprehensive catalogs of regulatory regions by integrating public ChIP-seq, ChIP-exo and DAP-seq datasets to map transcription factor and histone modification binding in Homo sapiens and Arabidopsis thaliana.

Key Features:

• Extensive data integration: The human atlas comprises 5,798 datasets, including the 2020 update adding 2,764 human ChIP-seq and 208 ChIP-exo datasets.
• Human transcriptional regulator coverage: Catalogs 1,135 transcriptional regulators in humans encompassing 165 million peaks.
• Arabidopsis transcriptional regulator catalog: Covers 372 transcriptional regulators across 2.6 million peaks from the integration of 509 ChIP-seq and DAP-seq datasets.
• Arabidopsis histone modification catalog: Details 33 histone modifications and variants across 4.5 million peaks derived from 286 ChIP-seq datasets.
• Programmatic access: Underlying data are available via a RESTful API for integration into computational workflows.

Scientific Applications:

• Transcription factor binding site mapping: Identification and characterization of transcription factor binding sites across large-scale datasets.
• Histone modification analysis: Analysis of histone modification patterns and their regulatory roles.
• Comparative regulatory genomics: Comparative studies between Homo sapiens and Arabidopsis thaliana to investigate conserved and divergent regulatory mechanisms.
• Genomics, epigenetics and systems biology: Support for investigations of regulatory networks governing gene expression.

Methodology:

Integrative large-scale analysis of publicly available ChIP-seq, ChIP-exo and DAP-seq datasets to generate consolidated catalogs of binding peaks for transcriptional regulators and histone modifications.