OA for disease term
From WormBaseWiki
Jump to navigationJump to searchIn 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"