BEL Curation Procedures and Guidelines

This folder contains the BEL curation procedures and guidelines developed and used during the Human Brain Pharmacome project.

General Guidelines

• Style Guide for BEL
  • Division of Content into Documents
  • Document Metadata
  • Organization of Terminologies
  • Usage of Short vs. Long Form
  • Usage of SET STATEMENT_GROUP
  • Proper Spacing
• Cookbook
  • Post-Translational Modifications

Topic-Specific Guidelines

• Chemical Biology Curation Guidelines
  • Inhibitors
  • Receptor Binding
• Encoding of Genetic Information
  • Epigenetics
  • Single Nucleotide Polymorphisms (SNPs)

Procedures

• Re-curation Guidelines
  • Normalizing Entities
  • Checking Correctness
• Curation using INDRA
  • 1. Identification of target entities
  • 2. Gather statements from INDRA
  • 3. Preparation of Curation Sheets
  • 4. Curation
  • 5. Re-Curation
• Curation Guidelines for INDRA errors
  • Gene-centric
  • Relationship
  • Identification
  • Negation
  • Subject/object
  • Not Evidence
  • Site of Modification
  • Physical Contact Missing
• Rational Enrichment
  • 1. Assemble BEL from Relevant Sources
  • 2. Identify Low-Information Nodes
  • 3. Filter Low-Information Nodes
  • 4. Curation

Technologies

• Curation with Git
  • 1. Make a Branch
  • 2. Commits with Incremental Progress
  • 3. Merge

Indices and tables

• Index
• Module Index
• Search Page