XP:biological process xp cell

Synopsis

Logical definitions for GO Biological Processes using OBO-Cell. These were sourced from auto-generated results, but then vetted manually. They may still be incomplete. The relations used may also change. osteoblast differentiation = cell differentiation THAT results_in_acquisition_of_features_of osteoblast

Introduction

XPs defining biological processes in terms of cells; example:

 [Term]
 id: GO:0009994 ! oocyte differentiation
 intersection_of: GO:0030154 ! cell differentiation
 intersection_of: OBO_REL:results_in_acquisition_of_features_of CL:0000023 ! oocyte

i.e. oocyte differentiation = cell differentiation THAT results_in_acquisition_of_features_of oocyte

See the go/scratch/xps directory

• xp obo file
• imports file - point oboedit at this

This xp file has been registered in the OBO xps metadata so it is available here:

• downloads page
• HTML

Missing Link Report:

• http://sourceforge.net/tracker/index.php?func=detail&aid=1940574&group_id=36855&atid=440764

Other reports:

• In the GO Tracker, set the Group to be "Cell-XP"
• In the Cell Ontology tracker, set the Group to be GO-Cell-XP

These will be examined after the NIAID cell ontology meeting (many involve immunology)

Relations used

Many relations of the results_in_X form are used. These may seem partially redundant with the BP hierarchy, but they make reasoning easier.

Examples:

• results_in_complete_development_of
• results_in_acquisition_of_features_of

All in ro_proposed

History

See XP:Meetings

The first pass of bp_xp_cell used a relatively minimal set of relations based on has_participant. However, this set did not prove to be enough to provide necessary and sufficient conditions. We are now using a wider set from ro_proposed