GONUTS has been updated to MW1.29.2. Most things seem to be working but be sure to report problems.

It is now the 6th OPEN Period for CACAO Spring 2018! It will end on Monday April 23, 2018 at 05:59 pm CDT
This is your chance to make annotations OR challenge other team's annotations. You may also DEFEND or suggest improvements to your own annotations IF they have been challenged. Please note, although we ENCOURAGE challenges, an excess of identical challenges that do not appear to be applicable to the annotation or well thought out will be considered spam and ignored.

It is now the 4th OPEN Period for CACAO Phage Hunters 2018! It will end on Sunday April 22, 2018 at 11:59 pm CDT
This is your chance to make annotations OR challenge other team's annotations. You may also DEFEND or suggest improvements to your own annotations IF they have been challenged. Please note, although we ENCOURAGE challenges, an excess of identical challenges that do not appear to be applicable to the annotation or well thought out will be considered spam and ignored.

Have any questions? Please email us at ecoliwiki@gmail.com

with from

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CACAO
the intercollegiate annotation competition!
The Community Assessment of Community Annotation with Ontologies (CACAO) is a competition for teams of undergrads around the world to improve the functional annotation of genes. CACAO was developed and is currently run at Texas A&M University, along with many other institutions. If you are interested in participating, please email us - ecoliwiki@gmail.com.
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This page is to help CACAO students use with/from correctly.

Annotation with some evidence codes will bring up a new field where you must enter something in the with/from field. The table below describes whether with/from is needed and what information is allowed. Note this documentation includes evidence codes that are not usually allowed in CACAO.


Evidence allowable with/from contents (from documentation, not comprehensive) mandatory? ID types currently in use*

EXP

none

-

gene

IDA

none

-

gene, protein

IPI

gene, protein, chemical

Y

gene, protein, peptide, enzyme, chemical, pathway, nucleotide, GO, domain, family, compound, gene symbol, chemical structure

IMP

allele

gene, protein, genotype, morpholino, gene symbol, GO, protein family, literature, RNAi, phenotype, transgene, variation

IGI

gene

feature, protein, gene, genotype, morpholino, gene symbol, peptide, pathway, nucleotide, RNAi, variation, controlled vocabulary

IEP

chemical, gene

ISS

protein, gene, sequence model/method

Y (when known)

gene, protein, peptide, sequence model, gene symbol, pathway, nucleotide, protein, transcript, GO, literature, domain, family, disease, protein family tree, protein structure, motif, site, RNAi, variation

ISO

protein, gene

Y

gene, protein, nucleotide, domain, family

ISA

protein, gene

Y

gene, protein, transcript, feature, nucleotide, domain, gene symbol, protein family, RNAi, variation

ISM

sequence model/method

Y (when known)

gene, protein, sequence model, domain, protein family, protein family tree, protein structure, literature

IGC

gene, pathway

gene, protein, pathway, domain

IBA

gene, protein, protein family tree

IBD

none

IKR

domain, family, annotation rule, alignment, protein family tree

gene, protein, nucleotide, protein family tree

IRD

gene, protein family tree

RCA

gene, protein, domain, protein family, peptide

TAS

gene

NAS

protein

IC

GO

Y

gene, protein, feature, sequence model, GO, domain, protein family, literature

ND

none

IEA

gene, protein, enzyme, sequence model/method, domain, family, controlled vocab. mapping, annotation rule

Y

gene, protein, sequence model, enzyme, transcript, annotation rule, domain, protein family, pathway, controlled vocabulary

ID types

The content of the with/from field should be an accession to an entity in another database.

Note that when using with for evidence based on homology (ISS, ISA or ISO), the entity in the with/from field must be something that has been experimentally annotated.