YEASTRACT

YEASTRACT provides a curated repository of transcriptional regulatory associations in Saccharomyces cerevisiae, enabling analysis of transcription factors (TFs) and their target genes.

Key Features:

• Extensive Database: Contains over 48,200 regulatory associations and annotations of 298 DNA-binding sites for 110 characterized TFs.
• Experimental Evidence Classification: Categorizes the experimental evidence supporting each regulatory association as direct or indirect.
• Machine-Readable Web-Service Interface: Provides a machine-readable web-service interface for programmatic querying and retrieval of YEASTRACT data.
• Computational Tools: Includes computational tools that operate on the curated data to address questions about transcriptional regulation.

Scientific Applications:

• Identification of Regulators: Identify documented or potential transcription regulators for specific genes in Saccharomyces cerevisiae.
• Regulon Exploration: Explore regulons associated with individual TFs using curated TF–target associations and DNA-binding site annotations.
• Direct versus Indirect Interaction Analysis: Differentiate direct and indirect regulatory interactions based on the database's experimental evidence classification.

Methodology:

Manual curation of literature-derived regulatory associations; annotation of DNA-binding sites for TFs; classification of experimental evidence as direct or indirect; and exposure of the curated data via computational tools and a machine-readable web-service interface.