OA for disease term
From WormBaseWiki
In cases where there is no elegans gene to attach disease data (eg., Huntington's disease), data will be attached to the DO-term.
Contents
DO term model
?DO_term
Name UNIQUE ?Text
Status UNIQUE Valid
Obsolete
Alternate_id ?Text
Definition UNIQUE ?Text
Worm_disease_model ?Text ?Species #Evidence //added Jan 2014, for WS242
Comment Text
Synonymn Broad ?Text
Exact ?Text
Narrow ?Text
Related ?Text
Parent Is_a ?DO_term XREF Is
Child Is ?DO_term XREF Is_a
DB_info Database ?Database ?Database_field Text
Type GOLD
Gram_negative_bacterial_infectious_disease
Gram_positive_bacterial_infectious_disease
Sexually_transmitted_infectious_disease
Tick_borne_infectious_disease
Zoonotic_infectious_disease
Attribute_of Gene_by_biology ?Gene XREF Experimental_model
Gene_by_orthology ?Gene XREF Potential_model
Phenotype ?Phenotype XREF DO_term
WBProcess ?WBProcess XREF DO_term
Reference ?Paper XREF DO_term
Version UNIQUE Text
Fields for the Disease Term OA
| Order | Name | Type | Required? | Shows in OA as | acedb tag | |
|---|---|---|---|---|---|---|
| 1 | DO term | Autocomplete obo | required | Huntington's disease (DOID:12858) | ?DO_term | |
| 2 | Curator | Autocomplete dropdown | required | Ranjana Kishore | Curator_confirmed | |
| 3 | Curator History | script populates | n/a | 56 | n/a | |
| 4 | Species | Autocomplete dropdown | required | Homo sapien | ?Species | |
| 5 | Worm Model Description | Big text box | required | The C. elegans model for.. | Worm_model_description | |
| 6 | Paper | Autocomplete obo, multivalue | required | WBPaper00038373 WBPaper00040341 |
Paper_evidence | |
| 7 | Date | Autocompleted for new annotation editable for old |
required | 2014-02-27 | Date_last_updated | |
| 8 | Comment | Free text | optional | Waiting for DO_term.. | n/a | |
| 9 | PGID | Script populates | n/a | 48 | n/a |
Location of disease data
/home/acedb/ranjana/human_disease
Example .ace file
DO_term : "DOID:12858" Worm_model_description "The human ortholog of arl-6, ADP-ribosylation factor-like 6 (ARL6) also known as BBS3, is mutated in Bardet-Biedl syndrome 3; Bardet-Biedl syndrome phenotypes include retinal degeneration, obesity, renal malformations, polydactyly and learning disabilities; studies in the worm have contributed extensively to the finding that cystic kidney diseases can be considered ciliopathies; most of the known BBS proteins in human and elegans encode basal body or cilia proteins involved in ciliary structure and function including intraflagellar transport (IFT); studies in elegans indicate that transcription of BBS proteins is regulated by a RFX-transcription factor and that BBS proteins may also regulate GCY-35/GCY-36 cGMP signaling which can affect BBS mutant gene phenotypes." "Homo sapiens" Paper_evidence "WBPaper00038373" Worm_model_description "The human ortholog of arl-6, ADP-ribosylation factor-like 6 (ARL6) also known as BBS3, is mutated in Bardet-Biedl syndrome 3; Bardet-Biedl syndrome phenotypes include retinal degeneration, obesity, renal malformations, polydactyly and learning disabilities; studies in the worm have contributed extensively to the finding that cystic kidney diseases can be considered ciliopathies; most of the known BBS proteins in human and elegans encode basal body or cilia proteins involved in ciliary structure and function including intraflagellar transport (IFT); studies in elegans indicate that transcription of BBS proteins is regulated by a RFX-transcription factor and that BBS proteins may also regulate GCY-35/GCY-36 cGMP signaling which can affect BBS mutant gene phenotypes." "Homo sapiens" Paper_evidence "WBPaper00040341" Worm_model_description "The human ortholog of arl-6, ADP-ribosylation factor-like 6 (ARL6) also known as BBS3, is mutated in Bardet-Biedl syndrome 3; Bardet-Biedl syndrome phenotypes include retinal degeneration, obesity, renal malformations, polydactyly and learning disabilities; studies in the worm have contributed extensively to the finding that cystic kidney diseases can be considered ciliopathies; most of the known BBS proteins in human and elegans encode basal body or cilia proteins involved in ciliary structure and function including intraflagellar transport (IFT); studies in elegans indicate that transcription of BBS proteins is regulated by a RFX-transcription factor and that BBS proteins may also regulate GCY-35/GCY-36 cGMP signaling which can affect BBS mutant gene phenotypes." "Homo sapiens" Curator_confirmed "WBPerson324" Worm_model_description "The human ortholog of arl-6, ADP-ribosylation factor-like 6 (ARL6) also known as BBS3, is mutated in Bardet-Biedl syndrome 3; Bardet-Biedl syndrome phenotypes include retinal degeneration, obesity, renal malformations, polydactyly and learning disabilities; studies in the worm have contributed extensively to the finding that cystic kidney diseases can be considered ciliopathies; most of the known BBS proteins in human and elegans encode basal body or cilia proteins involved in ciliary structure and function including intraflagellar transport (IFT); studies in elegans indicate that transcription of BBS proteins is regulated by a RFX-transcription factor and that BBS proteins may also regulate GCY-35/GCY-36 cGMP signaling which can affect BBS mutant gene phenotypes." "Homo sapiens" Date_last_updated "2014-02-27" Mapping of .ace to fields of OA: DO_term : "DOID:12858" comes from 'DO term' field Worm_model_description "The human ortholog of arl-6,.. comes from 'Worm Model description' field "Homo sapiens" comes from 'Species' field Paper_evidence "WBPaper00038373" comes from 'Paper' field Paper_evidence "WBPaper00040341" comes from 'Paper' field Curator_confirmed "WBPerson324" comes from 'Curator' field Date_last_updated "2014-02-27" comes from 'Date' field
