Home

Table of Contents Gene descriptions project of the Alliance of Genome Research (AGR) Data categories planned for the gene description Data sources GO module Annotation priority by evidence code Sentence templates for GO Annotation exclusions Term exclusions Term replacements Disease module

Gene descriptions project of the Alliance of Genome Research (AGR)

Aim: To generate a brief text summary of the current knowledge of a gene based on data present in AGR. This documentation aims to record what has been done and how, for current tasks not yet completed see the AGR JIRA site: https://agr-jira.atlassian.net/browse/AGR-787

Data categories planned for the gene description

1. Molecular function/identity (based on GO MF annoations)
2. Biological processes involved in (based on GO BP annotations)
3. Cellular localization (based on GO CC annotations)
4. Disease associations (based on Disease Ontology (DO) term annotations)
5. Tissue expression

Data sources

General data source: https://s3.amazonaws.com/mod-datadumps

GO module

Brief description of algorithm

Annotation priority by evidence code

1. Experimental: EXP, IDA, IPI, IMP, IGI, IEP
2. High-throughput experimental: HTP, HDA, HMP, HGI, HEP
3. Phylogenetic and sequence based analysis: IBA, IBD, ISS, ISO, ISA, ISM
4. Electronic and computational analysis: IEA, RCA

Sentence templates for GO

Function:

1. Exhibits
2. A <structural></structural>

Process:

Component:

Annotation exclusions

1. 'NOT' annotations

Term exclusions

• GO:0008150
• GO:0003674
• GO:0005575
• GO:0005488
• GO:0005515
• GO:0044877

Term replacements

1. molting cycle, collagen and cuticulin-based cuticle: molting cycle
2. molting cycle, chitin-based cuticle: molting cycle
3. multicellular organism growth: growth
4. embryo development ending in birth or egg hatching: embryo development
5. synaptic transmission, <some></some>: <some></some> synaptic transmission

Disease module