WikiGene

WikiGene enables community curation and verification of literature-mined gene regulatory relationships produced by LitMiner's PubMed co-occurrence analysis.

Key Features:

• Integration with LitMiner: Accepts predicted relationships produced by LitMiner from co-occurrence analysis of PubMed abstracts.
• Literature-mining basis: Operates on predictions derived from co-occurrence of genes, chemical compounds, diseases, and tissues in PubMed abstracts.
• Community curation and verification: Provides expert-driven curation to validate and annotate postulated gene-gene relationships, including addressing lack of directionality in automatic predictions.
• Refinement for downstream analysis: Produces curated gene lists and refined regulatory relationships suitable for downstream analyses such as promoter modeling.
• Retention of postulated relationships: Maintains and refines literature-derived postulated gene-gene relationships generated by LitMiner.

Scientific Applications:

• Disease-related regulatory network reconstruction: Uses LitMiner-derived gene lists refined through curation to support promoter modeling and reconstruction of disease-related regulatory networks.
• Genomic regulatory data improvement: Enhances the reliability of literature-mined gene regulatory information for genomics and related research.

Methodology:

Prediction of relationships by co-occurrence analysis of PubMed abstracts via LitMiner; expert curation and verification of predicted gene-gene relationships; use of promoter modeling for reconstructing disease-related regulatory networks.