Caltech documentation

First-pass flagging

• First-pass flagging pipelines
• Instructions for the first pass curator:
  • Quick summary
  • Detailed instructions
• Datatypes flagged through the first-pass forms: Datatypes flagged

Automation and Text Mining Approaches

• Curation Tasks

• Schedule for Presentations

• WormBase Literature Curation Workflow

Citace

• citace data assignments

Datatype

• Antibody
• Concise Descriptions
• Expression Pattern
• Gene Class Descriptions
• Gene Interaction
• Gene Ontology
• Gene-Paper Associations
• Gene Regulation
• Life_Stage
• Molecule
• Movie
• Paper Pipeline
• Phenotypes
• Physical Interactions
• Pictures
• RNAi
• Sequence Feature
• Topic_pages
• Transgenes
• Disease and Drugs
• Drugs

Paper Categorization

• WormBase Paper Categorization

Biological Topic Curation

• Topic Curation
• WikiPathways Questions & Comments

Curation Progress

• Curation status pages
• New 2012 Curation Status pages

postgres

• WBGene information and status pipeline
• Source and maintenance of non-WBGene info
• OA forms, tables, scripts, etc
• Postgres queries
• Updating Postgres with New WS Information

Caltech weekly meetings

• WormBase-Caltech Weekly Calls

Conference Calls

• November 25, 2009 - Sequence Curation Flags

Phenote

• Phenote cgi wish list

Ontology Annotator

• Overview
  • Batch upload data to OA
  • Problems

Textpresso

• Textpresso
• How to make a new Textpresso category
• Textpresso Central

SVMs for First Pass Curation

• What are SVMs?
• SVM Guidelines
• WormBase SVMs
• dictyBase
• FlyBase

GSA markup

• GSA Markup Workflow
• GSA Markup SOP
• GSA linking pipeline
• Entity classes and problems
  • Papers that have been markedup
  • Markup excerpts
• Future Entities for markup
• GSA Markup Meeting Notes
• GO entity markup

User Guide 2010

Table of Contents

Interesting, Not-yet-modelled Data Index

INDI

Release note requests from Caltech

Release note requests