LEGO Curation
Contents
Agenda
Logins
- Everyone set up okay?
LEGO Principles
- Pieces of biological information are connected using a controlled vocabulary of relations
- Assertions made using these relations are supported with evidence statements, i.e. ECO codes, references
- LEGO models are 'models of instances' meaning that these are models of specific individuals and events
LEGO at its Most Basic
- Molecular functions are enabled_by genes/gene products
- Molecular functions may be part_of larger biological processes
- Molecular functions occur_in some location
- Subcellular locations are part_of some larger anatomical structure
LEGO Beyond Basics
- Some biological processes and molecular functions regulate other biological processes
- The regulation may be positive or negative and may be 'direct' or 'indirect'
- Some biological processes and molecular functions are causally upstream of other biological processes
- Sometimes you don't know how two things are related - 'causally upstream of or within'
Paper for Curation
- The Intestinal Copper Exporter CUA-1 Is Required for Systemic Copper Homeostasis in Caenorhabditis elegans. PMID:27881675
- The entities:
- cua-1 (WBGene00000834)
- WP:CE26305 CUA-1, isoform a, 1238 aa
- WP:CE19271 CUA-1, isoform b, 1116 aa
- cuc-1 (WBGene00000835)
- pgp-2 (WBGene00003996)
- cua-1 (WBGene00000834)
CUA-1 Molecular Function
- Is the molecular function demonstrated in this paper?
pg. 4 To further confirm whether the CUA-1.1::GFP translational fusion protein can transport Cu, we exploited previously established assays in Atp7a+/+ and Atp7a-/- mouse embryonic fibroblasts (MEFs) (24). Atp7a-/- MEFs transiently transfected with CUA-1.1::GFP showed increased expression of Cu chaperone for superoxide dismutase (CCS), indicating decreased levels of cellular Cu (25,26) as compared to Atp7a-/- MEFs transfected with an empty vector (Supplemental Fig. S3A). Over-accumulated Cu in Atp7a-/- MEFs was rescued by ectopic expression of CUA-1.1::GFP (Supplemental Fig.S3B), further indicating that CUA-1.1 can export Cu. Moreover, these results demonstrate that a C-terminal GFP tag does not significantly interfere with CUA-1 function.
is_a GO:0005375 copper ion transmembrane transporter activity part_of GO:0060003 copper ion export is_a GO:0043682 copper-transporting ATPase activity GO:0004008 copper-exporting ATPase activity