Data import: checklist (draft)

Introduction

This checklist is intended to help formalize the decision-making process for importing new data into Pathway Commons. The aim is to help structure and update information about providers along with useful considerations about the data and the actual status of import.

Format: Could paste template below into each github issue for data import and fill out? Triage: Could assign wegihts to each of the categories and triage accordingly?

General

• Homepage: [url]
• Downloads: [url]
• Publications: [list PMIDs]

Contact

• Primary
  • Name:
  • Email:
  • Position:
• Technical
  • Name:
  • Email:
  • Position:
• Helpdesk

Value

• Uniqueness: [Scale 1 - 10]
• Size: [No. interactions]
• Richness
  • Curated
  • Database identifiers
  • Publications
• Conceptual area
  • Immunity
  • Metabolism
  • Drugs
  • Signalling
  • Gene regulatory
  • Genetic interactions
  • Molecular interactions
• Species
  • human
  • mouse
  • yeast
  • bacteria
  • Other:

Format

• Available as standard
  • BioPAX
    • Level 2
    • Level 3
  • PSI-MI
  • Does validate
    • Has gene identifiers
    • Has publication references
    • Estimated coverage
  • Usability
    • Immediate
    • Not immediately usable
      • Provider can do all required work
      • Pathway Commons must do required work
        • Estimated time: [hours/days/weeks]
        • Tasks
          • Critical issues
          • Non-critical issues
• Non-standard
  • Provider can do all required work
  • Pathway Commons will do required work
    • Estimated time: [hours/days/weeks]
    • Tasks
      • Mapping document required

Data (post-conversion)

• Can load in partial data
• Compatibility
  • SIF
  • SBGN-ML

Maintenance

• Hosting
  • Provider will host
  • Pathway Commons will host
• Updates
  • Data will not be updated
  • Data will be updated

Licensing

• Use
  • Free for academic and commercial use
  • Restrictions on commercial use
  • Restrictions on academic and commercial use
• Redistribution
  • Explicit permission required
  • Restriction on data modification
  • Must provide data access logs