CornCyc 4.0

Parent

Overview
Released: 
November 2013

** Please note: The intial PMN 8.0 release in June 2013 included CornCyc 3.0. The complete release in July 2013 included CornCyc 3.5. In CornCyc 3.5, we removed proteins that are no longer associated to any reactions, to complete the process of annotation updates of CornCyc 3.0. In CornCyc 4.0 (released in November 2013), we fixed a technical data-processing error and added missing components to CornCyc.

Taxonomic Range: 
Zea mays mays
Protein Sequence Source: 

Phytozome 9.0 Zmays_181_peptide.fa

Enzyme Functional Annotation Method: 

E2P2 2.0

Enzyme Evidence: 
  • Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
  • Small number of manually curated enzymes
Pathway Prediction Program: 
Pathway Tools 16.5
SAVI pathway validation lists: 
MCP 1.0
CAPP 1.0
AIPP 1.0
NPP 4.0
UPP 4.0
Pathway Evidence: 
  • Primarily computational prediction of pathways followed by SAVI refinement and curator review
  • Additional pathways imported from MetaCyc and MaizeGDB based on experimental evidence or curator inference
Link to PGDB: 
CornCyc

  

The PMN is funded by the National Science Foundation (Grant #: 1546838, 1026003 and 0640769) and the Department of Energy (BER Grant #:  ER65472), governed by an Editorial Board composed of internationally renowned scientists, and executed at the Carnegie Institution for Science, Department of Plant Biology.