Difference between revisions of "WormBase Models"
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− | + | = The A - Z of WormBase Models = | |
+ | |||
+ | __TOC__ | ||
+ | |||
+ | Document created from [http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=markup&pathrev=WS218 WS218] models. | ||
[http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=markup Sanger CVS models.wrm] | [http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=markup Sanger CVS models.wrm] | ||
+ | |||
+ | The intention of this page is to allow all curators to see the models that they curated data for, it is not intended for this to be a development area, more for visualisation and clarity of the acedb models. | ||
+ | |||
+ | "#" indicates a Hash that can be used in multiple places in the models file. | ||
+ | |||
+ | This is not a complete list of models as new ones have been created since the document was 1st produced and also some are classes that are necessary for acedb to function correctly. | ||
+ | |||
+ | == Models List == | ||
+ | |||
+ | Status: | ||
+ | Done = Document added to wiki | ||
+ | Review complete = Models has been updated to remove unused tags etc. | ||
{| border="1" class="wikitable" | {| border="1" class="wikitable" | ||
− | |||
! No. | ! No. | ||
! Class | ! Class | ||
Line 10: | Line 25: | ||
! Comment/Brief Description | ! Comment/Brief Description | ||
! Curator(s) | ! Curator(s) | ||
+ | ! Status | ||
|- | |- | ||
| 1 | | 1 | ||
|[[WormBase Model:2_point_data|2_point_data]] | |[[WormBase Model:2_point_data|2_point_data]] | ||
− | | | + | | Hinxton |
− | | | + | | |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 2 | | 2 | ||
| [[WormBase Model:3d_data|3d_data]] | | [[WormBase Model:3d_data|3d_data]] | ||
| ? | | ? | ||
− | | ? | + | | This class is not used and the model should probably be merged into the ?Structure_data model? |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 3 | | 3 | ||
|[[WormBase Model:Accession_number|Accession_number]] | |[[WormBase Model:Accession_number|Accession_number]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 4 | | 4 | ||
| [[WormBase Model:Analysis|Analysis]] | | [[WormBase Model:Analysis|Analysis]] | ||
− | | | + | | Hinxton |
| This class is used along with ?Condition to store meta data about an experiment | | This class is used along with ?Condition to store meta data about an experiment | ||
− | | | + | | Michael Paulini |
+ | | Done | ||
|- | |- | ||
| 5 | | 5 | ||
Line 40: | Line 60: | ||
| ? | | ? | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 6 | | 6 | ||
Line 46: | Line 67: | ||
| ? | | ? | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 7 | | 7 | ||
Line 52: | Line 74: | ||
| ? | | ? | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 8 | | 8 | ||
| [[WormBase Model:Antibody|Antibody]] | | [[WormBase Model:Antibody|Antibody]] | ||
| Caltech | | Caltech | ||
− | | | + | | Worm antibodies created by research laboratories. |
− | | | + | |Xiaodong Wang |
+ | | Done | ||
|- | |- | ||
| 9 | | 9 | ||
| [[WormBase Model:AO_code|AO_code]] | | [[WormBase Model:AO_code|AO_code]] | ||
− | | | + | | Caltech |
| ? | | ? | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 10 | | 10 | ||
| [[WormBase Model:Atlas|Atlas]] | | [[WormBase Model:Atlas|Atlas]] | ||
| OICR | | OICR | ||
− | | WORMBASE ATLAS (VIRTUAL WORM) | + | | WORMBASE ATLAS (VIRTUAL WORM) - unused data class |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 11 | | 11 | ||
Line 76: | Line 102: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 12 | | 12 | ||
| [[WormBase Model:Balancer|Balancer]] | | [[WormBase Model:Balancer|Balancer]] | ||
| ? | | ? | ||
− | | ? | + | | Unused class? |
− | | | + | | |
+ | | Done | ||
|- | |- | ||
| 13 | | 13 | ||
| [[WormBase Model:CDS|CDS]] | | [[WormBase Model:CDS|CDS]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| [[User:Pdavis|Paul Davis]] + others | | [[User:Pdavis|Paul Davis]] + others | ||
+ | | Done | ||
|- | |- | ||
| 14 | | 14 | ||
| [[WormBase Model:Cell|Cell]] | | [[WormBase Model:Cell|Cell]] | ||
− | | | + | | Hinxton/Caltech? |
| ? | | ? | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 15 | | 15 | ||
| [[WormBase Model:Cell_group|Cell_group]] | | [[WormBase Model:Cell_group|Cell_group]] | ||
− | | | + | | Hinxton/Caltech? |
| ? | | ? | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 16 | | 16 | ||
| [[WormBase Model:Clone|Clone]] | | [[WormBase Model:Clone|Clone]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 17 | | 17 | ||
| [[WormBase Model:Condition|Condition]] | | [[WormBase Model:Condition|Condition]] | ||
− | | | + | | Caltech |
− | | | + | | This model describes experimental sample conditions, such as life stage, genotype and preparation, mostly used for Microarray. |
− | | | + | | Wen Chen + Others |
+ | | Done | ||
|- | |- | ||
| 18 | | 18 | ||
| [[WormBase Model:Contig|Contig]] | | [[WormBase Model:Contig|Contig]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 19 | | 19 | ||
| [[WormBase Model:Database|Database]] | | [[WormBase Model:Database|Database]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 20 | | 20 | ||
| [[WormBase Model:Database_field|Database_field]] | | [[WormBase Model:Database_field|Database_field]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 21 | | 21 | ||
| [[WormBase Model:Expression_cluster|Expression_cluster]] | | [[WormBase Model:Expression_cluster|Expression_cluster]] | ||
| Caltech | | Caltech | ||
− | | | + | | Clustering results of genes with similar expression profile in large scale analysis such as microarray and chronogram. |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 22 | | 22 | ||
| [[WormBase Model:Expr_pattern|Expr_pattern]] | | [[WormBase Model:Expr_pattern|Expr_pattern]] | ||
| Caltech | | Caltech | ||
− | | | + | | Conventional expression pattern analysis including reporter gene analysis, antibody staining, in situ, RT-PCR, Northern, Western ... |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 23 | | 23 | ||
Line 148: | Line 186: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 24 | | 24 | ||
| [[WormBase Model:Feature|Feature]] | | [[WormBase Model:Feature|Feature]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
− | | [[User:Pdavis|Paul Davis]] Mary | + | | [[User:Pdavis|Paul Davis]] Mary Ann |
+ | | Done | ||
|- | |- | ||
| 25 | | 25 | ||
| [[WormBase Model:Feature_data|Feature_data]] | | [[WormBase Model:Feature_data|Feature_data]] | ||
− | | | + | | Hinxton |
| ?Class of data used to mark up features on Transcript data | | ?Class of data used to mark up features on Transcript data | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 26 | | 26 | ||
| [[WormBase Model:Gene|Gene]] | | [[WormBase Model:Gene|Gene]] | ||
− | | | + | | Hinxton |
− | | Envelope for collecting/connecting data pertaining to a single gene | + | | Envelope for collecting/connecting data pertaining to a single gene (Don't worry MA didn't write this) |
| Mary Ann | | Mary Ann | ||
+ | | Done | ||
|- | |- | ||
| 27 | | 27 | ||
| [[WormBase Model:Gene_class|Gene_class]] | | [[WormBase Model:Gene_class|Gene_class]] | ||
− | | | + | | Hinxton |
| Used for describing and grouping a family of genes | | Used for describing and grouping a family of genes | ||
| Mary Ann | | Mary Ann | ||
+ | | Done | ||
|- | |- | ||
| 28 | | 28 | ||
| [[WormBase Model:Gene_cluster|Gene_cluster]] | | [[WormBase Model:Gene_cluster|Gene_cluster]] | ||
− | | | + | | Hinxton |
| Used to denote a cluster of genes of a specific type - not maintained? | | Used to denote a cluster of genes of a specific type - not maintained? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 29 | | 29 | ||
| [[WormBase Model:Gene_name|Gene_name]] | | [[WormBase Model:Gene_name|Gene_name]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 30 | | 30 | ||
| [[WormBase Model:Gene_regulation|Gene_regulation]] | | [[WormBase Model:Gene_regulation|Gene_regulation]] | ||
| Caltech | | Caltech | ||
− | | | + | | Capture the data on change of gene B expression level when gene A is perturbed |
− | | | + | | Xiaodong Wang |
+ | | Done | ||
|- | |- | ||
| 31 | | 31 | ||
| [[WormBase Model:Genetic_code|Genetic_code]] | | [[WormBase Model:Genetic_code|Genetic_code]] | ||
− | | | + | | Hinxton |
| Allows for alternate genetic codes for Mitocondria and selenocysteine. | | Allows for alternate genetic codes for Mitocondria and selenocysteine. | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 32 | | 32 | ||
| [[WormBase Model:GO_code|GO_code]] | | [[WormBase Model:GO_code|GO_code]] | ||
| Caltech | | Caltech | ||
− | | | + | | Used to capture the evidence (eg., 'IMP', Inferred from Mutant Phenotype) on which a GO annotation is based. |
− | | | + | | Ranjana Kishore, Kimberly Van Auken |
+ | | Done | ||
|- | |- | ||
| 33 | | 33 | ||
| [[WormBase Model:GO_term|GO_term]] | | [[WormBase Model:GO_term|GO_term]] | ||
| Caltech | | Caltech | ||
− | | | + | | Used to capture the GO term name which belongs to either the biological process, cellular component or molecular function ontology developed by the GO consortium. |
− | | | + | | Ranjana Kishore, Kimberly Van Auken |
+ | | Done | ||
|- | |- | ||
| 34 | | 34 | ||
| [[WormBase Model:Grid|Grid]] | | [[WormBase Model:Grid|Grid]] | ||
− | | | + | | Hinxton |
− | | ? | + | | Old data? do we still nedd it? |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 35 | | 35 | ||
| [[WormBase Model:Grid_data|Grid_data]] | | [[WormBase Model:Grid_data|Grid_data]] | ||
− | | | + | | Hinxton |
− | | | + | | Target for removal - Unused class, no data in WS218 |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 36 | | 36 | ||
| [[WormBase Model:Grid_row|Grid_row]] | | [[WormBase Model:Grid_row|Grid_row]] | ||
− | | | + | | Hinxton |
− | | | + | | Target for removal - Unused class, no data in WS218 |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 37 | | 37 | ||
| [[WormBase Model:Homol_data|Homol_data]] | | [[WormBase Model:Homol_data|Homol_data]] | ||
− | | | + | | Hinxton |
| Used for storing alignment data | | Used for storing alignment data | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 38 | | 38 | ||
| [[WormBase Model:Homology_group|Homology_group]] | | [[WormBase Model:Homology_group|Homology_group]] | ||
| Caltech | | Caltech | ||
− | | | + | | That is used to store information about KOGS/eggNOGS/etc. |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 39 | | 39 | ||
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| Caltech | | Caltech | ||
| ? | | ? | ||
− | | | + | | Chris & Kimberly |
+ | | Done | ||
|- | |- | ||
| 40 | | 40 | ||
| [[WormBase Model:Interval_col_conf|Interval_col_conf]] | | [[WormBase Model:Interval_col_conf|Interval_col_conf]] | ||
| ? | | ? | ||
− | | | + | | Poss target for removal as it's not used. |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 41 | | 41 | ||
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| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 42 | | 42 | ||
− | | [[WormBase Model:Lab_Location|Lab_Location]] | + | | [[WormBase Model:Lab_Location|#Lab_Location]] |
− | | | + | | |
− | | ? | + | | No one uses this hash, poss remove? |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 43 | | 43 | ||
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| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 44 | | 44 | ||
| [[WormBase Model:Library|Library]] | | [[WormBase Model:Library|Library]] | ||
− | | | + | | Hinxton |
− | | libraries used for sequencing of nematode ESTs // Information to come from Mark Blaxters | + | | libraries used for sequencing of nematode ESTs // Information to come from Mark Blaxters (This might be good for C. elegans seq project data?) |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 45 | | 45 | ||
| [[WormBase Model:Life_stage|Life_stage]] | | [[WormBase Model:Life_stage|Life_stage]] | ||
| Caltech | | Caltech | ||
− | | | + | | Developmental life stages for C. elegans. |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 46 | | 46 | ||
| [[WormBase Model:Locus|Locus]] | | [[WormBase Model:Locus|Locus]] | ||
− | | | + | | Hinxton |
− | | This class is a | + | | This class is a remnant that should be cleaned up. - Lots of unused tags, a priority for cleanup. |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 47 | | 47 | ||
| [[WormBase Model:ManyMap|ManyMap]] | | [[WormBase Model:ManyMap|ManyMap]] | ||
− | | | + | | AceDB |
− | | | + | | Internal class as the xace .c code is aware of it. |
− | | | + | | N/A |
+ | | Done | ||
|- | |- | ||
| 48 | | 48 | ||
| [[WormBase Model:Map|Map]] | | [[WormBase Model:Map|Map]] | ||
− | | | + | | AceDB |
− | | ? | + | | Internal class? |
− | | | + | | N/A |
+ | | Done | ||
|- | |- | ||
| 49 | | 49 | ||
| [[WormBase Model:Map_error|Map_error]] | | [[WormBase Model:Map_error|Map_error]] | ||
− | | | + | | AceDB |
− | | ? | + | | Internal class? |
− | | | + | | N/A |
+ | | Done | ||
|- | |- | ||
| 50 | | 50 | ||
| [[WormBase Model:Map_offset|Map_offset]] | | [[WormBase Model:Map_offset|Map_offset]] | ||
− | | | + | | Hinxton |
− | | ? | + | | Internal class? |
− | | | + | | N/A |
+ | | Done | ||
|- | |- | ||
| 51 | | 51 | ||
| [[WormBase Model:Map_position|Map_position]] | | [[WormBase Model:Map_position|Map_position]] | ||
− | | | + | | AceDB |
− | | ? | + | | Internal class? |
− | | | + | | N/A |
+ | | Done | ||
|- | |- | ||
| 52 | | 52 | ||
| [[WormBase Model:Mass_spec_experiment|Mass_spec_experiment]] | | [[WormBase Model:Mass_spec_experiment|Mass_spec_experiment]] | ||
− | | | + | | Hinxton |
− | | | + | | This gives details of a mass-specttrometry experiment and XREFS the mass-spec peptides produced by that experiment |
| Gary Williams | | Gary Williams | ||
+ | | Done | ||
|- | |- | ||
| 53 | | 53 | ||
| [[WormBase Model:Mass_spec_peptide|Mass_spec_peptide]] | | [[WormBase Model:Mass_spec_peptide|Mass_spec_peptide]] | ||
− | | | + | | Hinxton |
− | | | + | | This gives the sequence of a mass-spectrometry peptide. |
| Gary Williams | | Gary Williams | ||
+ | | Done | ||
|- | |- | ||
| 54 | | 54 | ||
Line 334: | Line 403: | ||
| AceDB class that details display etc. of objects in the other classes | | AceDB class that details display etc. of objects in the other classes | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 55 | | 55 | ||
| [[WormBase Model:Microarray|Microarray]] | | [[WormBase Model:Microarray|Microarray]] | ||
| Caltech | | Caltech | ||
− | | | + | | This model describes microarray platforms, each object is a type of microarray chip. |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 56 | | 56 | ||
| [[WormBase Model:Microarray_experiment|Microarray_experiment]] | | [[WormBase Model:Microarray_experiment|Microarray_experiment]] | ||
| Caltech | | Caltech | ||
− | | | + | | This model describes microarray experiments, each object is an independent experiment. |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 57 | | 57 | ||
| [[WormBase Model:Microarray_results|Microarray_results]] | | [[WormBase Model:Microarray_results|Microarray_results]] | ||
| Caltech | | Caltech | ||
− | | | + | | This model describes spots of each microarray chip, each object is a spot on a type of microarray platform. |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 58 | | 58 | ||
| [[WormBase Model:Mixed_grid_row|Mixed_grid_row]] | | [[WormBase Model:Mixed_grid_row|Mixed_grid_row]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 59 | | 59 | ||
| [[WormBase Model:Molecule|Molecule]] | | [[WormBase Model:Molecule|Molecule]] | ||
| Caltech | | Caltech | ||
− | | Used to capture molecules that influence gene activity and | + | | Used to capture molecules that influence gene activity and phenotypes. |
− | | [[User=kyook|Karen]] | + | | [[User=kyook|Karen Yook]] |
+ | | Done | ||
|- | |- | ||
| 60 | | 60 | ||
| [[WormBase Model:Motif|Motif]] | | [[WormBase Model:Motif|Motif]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 61 | | 61 | ||
| [[WormBase Model:Movie|Movie]] | | [[WormBase Model:Movie|Movie]] | ||
| Caltech | | Caltech | ||
− | | | + | | This class needs fleshing out with descriptive data as the majority of the tags are enpty. |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 62 | | 62 | ||
| [[WormBase Model:Multi_counts|Multi_counts]] | | [[WormBase Model:Multi_counts|Multi_counts]] | ||
− | | | + | | |
− | | ? | + | | Tied in with multi_ptd_data |
− | | | + | | Un-used so could possibly be retired? |
+ | | Done | ||
|- | |- | ||
| 63 | | 63 | ||
| [[WormBase Model:MultiMap|MultiMap]] | | [[WormBase Model:MultiMap|MultiMap]] | ||
| ? | | ? | ||
− | | Not used | + | | Not used - Acedb source code looks for this class, Keep. |
− | | | + | | |
+ | | Done | ||
|- | |- | ||
| 64 | | 64 | ||
| [[WormBase Model:Multi_pt_data|Multi_pt_data]] | | [[WormBase Model:Multi_pt_data|Multi_pt_data]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 65 | | 65 | ||
Line 400: | Line 480: | ||
| ?Not Used | | ?Not Used | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 66 | | 66 | ||
Line 406: | Line 487: | ||
| ? Not Used | | ? Not Used | ||
|[[User:raymond|Raymond]] | |[[User:raymond|Raymond]] | ||
+ | | Done | ||
|- | |- | ||
| 67 | | 67 | ||
Line 412: | Line 494: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 68 | | 68 | ||
Line 418: | Line 501: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 69 | | 69 | ||
| [[WormBase Model:Operon|Operon]] | | [[WormBase Model:Operon|Operon]] | ||
− | | | + | | Hinxton |
| Stores genes that are in Operons | | Stores genes that are in Operons | ||
| [[User:Pdavis|Paul Davis]] | | [[User:Pdavis|Paul Davis]] | ||
+ | | Done | ||
|- | |- | ||
| 70 | | 70 | ||
| [[WormBase Model:Paper|Paper]] | | [[WormBase Model:Paper|Paper]] | ||
| Caltech | | Caltech | ||
− | | | + | | Stores information about published papers, gazette articles, and meeting abstracts |
− | | | + | | Kimberly Van Auken |
+ | | Done | ||
|- | |- | ||
| 71 | | 71 | ||
Line 436: | Line 522: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 72 | | 72 | ||
Line 442: | Line 529: | ||
| ? | | ? | ||
| Cecilia Nakamura | | Cecilia Nakamura | ||
+ | | Done | ||
|- | |- | ||
| 73 | | 73 | ||
Line 448: | Line 536: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 74 | | 74 | ||
| [[WormBase Model:Phenotype|Phenotype]] | | [[WormBase Model:Phenotype|Phenotype]] | ||
| Caltech | | Caltech | ||
− | | | + | | This model is used for the phenotype ontology and the objects that phenotypes are assigned to. |
− | | | + | | Gary Schindleman |
+ | | Done | ||
|- | |- | ||
| 75 | | 75 | ||
| [[WormBase Model:Phenotype_Assay|Phenotype_Assay]] | | [[WormBase Model:Phenotype_Assay|Phenotype_Assay]] | ||
| Caltech | | Caltech | ||
− | | | + | | Unused class in WS218 (Could be removed if we run low on classes) |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 76 | | 76 | ||
Line 465: | Line 556: | ||
| Caltech | | Caltech | ||
| ? | | ? | ||
− | | | + | | |
+ | | Done | ||
|- | |- | ||
| 77 | | 77 | ||
| [[WormBase Model:Picture|Picture]] | | [[WormBase Model:Picture|Picture]] | ||
| Caltech | | Caltech | ||
− | | | + | | This model has been reworked removing unused tags |
− | | | + | | Daniela Raciti |
+ | | Review complete | ||
|- | |- | ||
| 78 | | 78 | ||
| [[WormBase Model:Position_Matrix|Position_Matrix]] | | [[WormBase Model:Position_Matrix|Position_Matrix]] | ||
| Caltech | | Caltech | ||
− | | | + | | Annotate experimentally well-validated DNA-binding profiles and individual binding sites for transcription factors (TFs) |
− | | | + | | Xiaodong Wang |
+ | | Done | ||
|- | |- | ||
| 79 | | 79 | ||
| [[WormBase Model:Pos_neg_data|Pos_neg_data]] | | [[WormBase Model:Pos_neg_data|Pos_neg_data]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 80 | | 80 | ||
| [[WormBase Model:Protein|Protein]] | | [[WormBase Model:Protein|Protein]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 81 | | 81 | ||
| [[WormBase Model:Pseudogene|Pseudogene]] | | [[WormBase Model:Pseudogene|Pseudogene]] | ||
− | | | + | | Hinxton |
| Stores the Pseudogene models | | Stores the Pseudogene models | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 82 | | 82 | ||
| [[WormBase Model:Rearrangement|Rearrangement]] | | [[WormBase Model:Rearrangement|Rearrangement]] | ||
− | | Caltech | + | | Hinxton, Caltech (phenotypes) |
− | | | + | | Caltech curates phenotypes of rearrangements. Sequence and object curation occurs at Hinxton. Changes to the model needed to be approved by Hinxton curators. |
− | | | + | | [[User:Kyook|Karen Yook]] (phenotype) |
+ | | Done | ||
|- | |- | ||
| 83 | | 83 | ||
− | | [[WormBase Model:ReconCellInfo|ReconCellInfo]] | + | | [[WormBase Model:ReconCellInfo|#ReconCellInfo]] |
| OICR | | OICR | ||
− | | | + | | |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 84 | | 84 | ||
Line 514: | Line 613: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 85 | | 85 | ||
| [[WormBase Model:Reference|Reference]] | | [[WormBase Model:Reference|Reference]] | ||
| Caltech | | Caltech | ||
− | | | + | | Target for removal - Unused data class, appears to have been replaced by paper (need to check acedb dependencies) |
| | | | ||
+ | | Done | ||
|- | |- | ||
| 86 | | 86 | ||
Line 525: | Line 626: | ||
| Caltech | | Caltech | ||
| Stores information pertaining to RNAi experiments, including RNAi probe targets, resulting phenotypes, and associated papers. | | Stores information pertaining to RNAi experiments, including RNAi probe targets, resulting phenotypes, and associated papers. | ||
− | | Gary | + | | [[User:schindelman|Gary Schindelman]], [[User:Cgrove|Chris Grove]] |
+ | | Done | ||
|- | |- | ||
| 87 | | 87 | ||
| [[WormBase Model:SAGE_experiment|SAGE_experiment]] | | [[WormBase Model:SAGE_experiment|SAGE_experiment]] | ||
− | | | + | | Hinxton |
− | | ? | + | | Could we not combine this with the ?Analysis class? |
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 88 | | 88 | ||
| [[WormBase Model:SAGE_tag|SAGE_tag]] | | [[WormBase Model:SAGE_tag|SAGE_tag]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
− | | | + | | Wen Chen |
+ | | Done | ||
|- | |- | ||
| 89 | | 89 | ||
| [[WormBase Model:Sequence|Sequence]] | | [[WormBase Model:Sequence|Sequence]] | ||
− | | | + | | Hinxton |
| A broad class for storing genomic, Transcripts Sequence etc. | | A broad class for storing genomic, Transcripts Sequence etc. | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 90 | | 90 | ||
Line 550: | Line 655: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 91 | | 91 | ||
Line 556: | Line 662: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 92 | | 92 | ||
| [[WormBase Model:Species|Species]] | | [[WormBase Model:Species|Species]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 93 | | 93 | ||
| [[WormBase Model:Strain|Strain]] | | [[WormBase Model:Strain|Strain]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 94 | | 94 | ||
Line 574: | Line 683: | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 95 | | 95 | ||
− | | [[WormBase Model:Timepoint|Timepoint]] | + | | [[WormBase Model:Timepoint|#Timepoint]] |
| OICR | | OICR | ||
| ? | | ? | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 96 | | 96 | ||
| [[WormBase Model:Transcript|Transcript]] | | [[WormBase Model:Transcript|Transcript]] | ||
− | | | + | | Hinxton |
| Stores RNAgenes and the Full length Coding_transcripts | | Stores RNAgenes and the Full length Coding_transcripts | ||
| | | | ||
+ | | Done | ||
|- | |- | ||
| 97 | | 97 | ||
| [[WormBase Model:Transgene|Transgene]] | | [[WormBase Model:Transgene|Transgene]] | ||
| Caltech | | Caltech | ||
− | | | + | | Used for capturing extrachromosomal and integrated genomic arrays used as tissue/cell markers, for rescuing genetic mutations, assaying gene function, and effects of gene overexpression. |
− | | | + | | Wen Chen, [[User:Kyook|Karen Yook]] |
+ | | Done | ||
|- | |- | ||
| 98 | | 98 | ||
| [[WormBase Model:Transposon|Transposon]] | | [[WormBase Model:Transposon|Transposon]] | ||
− | | | + | | Hinxton |
| Stores the Transposon span and S_child info | | Stores the Transposon span and S_child info | ||
| [[User:Pdavis|Paul Davis]] | | [[User:Pdavis|Paul Davis]] | ||
+ | | Done | ||
|- | |- | ||
| 99 | | 99 | ||
| [[WormBase Model:Transposon_family|Transposon_family]] | | [[WormBase Model:Transposon_family|Transposon_family]] | ||
− | | | + | | Hinxton |
| Used for grouping like ?Transposons | | Used for grouping like ?Transposons | ||
| [[User:Pdavis|Paul Davis]] | | [[User:Pdavis|Paul Davis]] | ||
+ | | Done | ||
|- | |- | ||
| 100 | | 100 | ||
| [[WormBase Model:Variation|Variation]] | | [[WormBase Model:Variation|Variation]] | ||
− | | | + | | Hinxton, Caltech (phenotype) |
| ? | | ? | ||
− | | Mary Ann | + | | Mary Ann, [[User:Kyook|Karen Yook]] (phenotype aspect) |
+ | | Done | ||
|- | |- | ||
| 101 | | 101 | ||
| [[WormBase Model:Variation_name|Variation_name]] | | [[WormBase Model:Variation_name|Variation_name]] | ||
− | | | + | | Hinxton |
| ? | | ? | ||
− | | | + | | Mary Ann |
+ | | Done | ||
|- | |- | ||
| 102 | | 102 | ||
Line 621: | Line 738: | ||
| Caltech | | Caltech | ||
| ? | | ? | ||
+ | | Xiaodong Wang | ||
+ | | Done | ||
+ | |- | ||
+ | | 103 | ||
+ | | [[WormBase Model:Address|#Address]] | ||
+ | | Caltech | ||
+ | | This hash should be used in place of all address fields in other models. | ||
| | | | ||
+ | | Done | ||
+ | |- | ||
+ | | 104 | ||
+ | | [[WormBase Model:Mass_spec_data|#Mass_spec_data]] | ||
+ | | Hinxton | ||
+ | | Describes details of a mass-spectrometry peptide | ||
+ | | Gary Williams | ||
+ | | Done | ||
+ | |- | ||
+ | | 105 | ||
+ | | [[WormBase Model:Phenotype_info|#Phenotype_info]] | ||
+ | | Caltech | ||
+ | | Information attached to an object concerning a particular phenotype | ||
+ | | Wen Chen, Gary Schindelman, [[User:Kyook|Karen Yook]] | ||
+ | | Done | ||
+ | |- | ||
+ | | 106 | ||
+ | | [[WormBase Model:Feature info|#Feature_info]] | ||
+ | | | ||
+ | | | ||
+ | | | ||
+ | | Done | ||
+ | |- | ||
+ | | 107 | ||
+ | | [[WormBase Model:SAGE mapping info|#SAGE_mapping_info]] | ||
+ | | | ||
+ | | | ||
+ | | | ||
+ | | Done | ||
+ | |- | ||
+ | | 108 | ||
+ | | [[WormBase Model:SAGE data|#SAGE_data]] | ||
+ | | | ||
+ | | | ||
+ | | | ||
+ | | Done | ||
+ | |- | ||
+ | | 109 | ||
+ | | [[WormBase Model:SMap info|#SMap_info]] | ||
+ | | | ||
+ | | | ||
+ | | | ||
+ | | Done | ||
+ | |- | ||
+ | | 110 | ||
+ | | [[WormBase Model:Homol info|#Homol_info]] | ||
+ | | Hinxton | ||
+ | | Stores Homology Data (BLAST/BLAT) | ||
+ | | Michael Paulini | ||
+ | | Done | ||
|} | |} | ||
+ | |||
+ | === Models added post WS218 === | ||
+ | {| border="1" class="wikitable" | ||
+ | ! No. | ||
+ | ! Class | ||
+ | ! Institute | ||
+ | ! Comment/Brief Description | ||
+ | ! Curator(s) | ||
+ | ! Status | ||
+ | |- | ||
+ | | | ||
+ | |[[WormBase Model:WBProcess|WBProcess]] | ||
+ | | Caltech | ||
+ | | For WormBase Biological Topics pages added for WS225 | ||
+ | | Karen | ||
+ | | | ||
+ | |- | ||
+ | | | ||
+ | |[[WormBase Model:Gene and Disease Ontology|Gene and Disease Ontology]] | ||
+ | | Caltech | ||
+ | | C. elegans as a model system to study disease and disease genes added WS236 | ||
+ | | Ranjana | ||
+ | | | ||
+ | |- | ||
+ | | | ||
+ | |[[WormBase Model:Construct|Construct]] | ||
+ | | Caltech | ||
+ | | Standardizing the curation of DNA plasmids used for generating variations and transgenes, and used for gene expression or gene regulation analysis | ||
+ | | Karen, Daniela, Chris, Mary Ann, Xiaodong | ||
+ | |} | ||
+ | |||
+ | == Action Targets == | ||
+ | |||
+ | 1) If you check your models I have started listing all unused tags in the bottom section of each page. | ||
+ | |||
+ | 2) 3d_data and Structure_data should be merged? | ||
+ | |||
+ | 3) All address info should get stored in the #Address hash Currently only used in the Person class, should unify all models to use the Address hash | ||
+ | |||
+ | 4) Author class should use #Address | ||
+ | |||
+ | 5) Could we add species to all datasets. | ||
+ | |||
+ | |||
+ | == Model Change Summaries == | ||
+ | |||
+ | This section is used by the model curator to document the changes in a given release and should not be edited by anyone other than the Model Curator ([[User:Pdavis|Paul Davis]]) | ||
+ | |||
+ | It was decided to move this out of the normal CVS comments section coming from sanger, the CVS will now contain a link to the appropriate wiki page. | ||
+ | |||
+ | [[WS223_Models.wrm]] | ||
+ | |||
+ | [[WS224_Models.wrm]] | ||
+ | |||
+ | [[WS225_Models.wrm]] | ||
+ | |||
+ | [[WS226_Models.wrm]] | ||
+ | |||
+ | [[WS227_Models.wrm]] | ||
+ | |||
+ | [[WS228_Models.wrm]] | ||
+ | |||
+ | [[WS229_Models.wrm]] | ||
+ | |||
+ | [[WS230_Models.wrm]] | ||
+ | |||
+ | [[WS231_Models.wrm]] | ||
+ | |||
+ | [[WS232_Models.wrm]] | ||
+ | |||
+ | [[WS233_Models.wrm]] | ||
+ | |||
+ | [[WS234_Models.wrm]] | ||
+ | |||
+ | [[WS235_Models.wrm]] | ||
+ | |||
+ | [[WS236_Models.wrm]] | ||
+ | |||
+ | [[WS237_Models.wrm]] | ||
+ | |||
+ | [[WS238_Models.wrm]] | ||
+ | |||
+ | [[WS239_Models.wrm]] | ||
+ | |||
+ | [[WS240_Models.wrm]] | ||
+ | |||
+ | [[WS241_Models.wrm]] | ||
+ | |||
+ | [[WS242_Models.wrm]] | ||
+ | |||
+ | [[WS243_Models.wrm]] | ||
+ | |||
+ | [[WS244_Models.wrm]] | ||
+ | |||
+ | [[WS245_Models.wrm]] |
Latest revision as of 23:06, 9 January 2014
The A - Z of WormBase Models
Contents
Document created from WS218 models.
The intention of this page is to allow all curators to see the models that they curated data for, it is not intended for this to be a development area, more for visualisation and clarity of the acedb models.
"#" indicates a Hash that can be used in multiple places in the models file.
This is not a complete list of models as new ones have been created since the document was 1st produced and also some are classes that are necessary for acedb to function correctly.
Models List
Status:
Done = Document added to wiki Review complete = Models has been updated to remove unused tags etc.
No. | Class | Institute | Comment/Brief Description | Curator(s) | Status |
---|---|---|---|---|---|
1 | 2_point_data | Hinxton | Done | ||
2 | 3d_data | ? | This class is not used and the model should probably be merged into the ?Structure_data model? | Done | |
3 | Accession_number | Hinxton | ? | Done | |
4 | Analysis | Hinxton | This class is used along with ?Condition to store meta data about an experiment | Michael Paulini | Done |
5 | Anatomy_function | Caltech | ? | Raymond | Done |
6 | Anatomy_name | Caltech | ? | Raymond | Done |
7 | Anatomy_term | Caltech | ? | Raymond | Done |
8 | Antibody | Caltech | Worm antibodies created by research laboratories. | Xiaodong Wang | Done |
9 | AO_code | Caltech | ? | Raymond | Done |
10 | Atlas | OICR | WORMBASE ATLAS (VIRTUAL WORM) - unused data class | Done | |
11 | Author | Caltech | ? | Done | |
12 | Balancer | ? | Unused class? | Done | |
13 | CDS | Hinxton | ? | Paul Davis + others | Done |
14 | Cell | Hinxton/Caltech? | ? | Raymond | Done |
15 | Cell_group | Hinxton/Caltech? | ? | Raymond | Done |
16 | Clone | Hinxton | ? | Done | |
17 | Condition | Caltech | This model describes experimental sample conditions, such as life stage, genotype and preparation, mostly used for Microarray. | Wen Chen + Others | Done |
18 | Contig | Hinxton | ? | Done | |
19 | Database | Hinxton | ? | Done | |
20 | Database_field | Hinxton | ? | Done | |
21 | Expression_cluster | Caltech | Clustering results of genes with similar expression profile in large scale analysis such as microarray and chronogram. | Wen Chen | Done |
22 | Expr_pattern | Caltech | Conventional expression pattern analysis including reporter gene analysis, antibody staining, in situ, RT-PCR, Northern, Western ... | Wen Chen | Done |
23 | Expr_profile | Caltech | ? | Done | |
24 | Feature | Hinxton | ? | Paul Davis Mary Ann | Done |
25 | Feature_data | Hinxton | ?Class of data used to mark up features on Transcript data | Done | |
26 | Gene | Hinxton | Envelope for collecting/connecting data pertaining to a single gene (Don't worry MA didn't write this) | Mary Ann | Done |
27 | Gene_class | Hinxton | Used for describing and grouping a family of genes | Mary Ann | Done |
28 | Gene_cluster | Hinxton | Used to denote a cluster of genes of a specific type - not maintained? | Done | |
29 | Gene_name | Hinxton | ? | Done | |
30 | Gene_regulation | Caltech | Capture the data on change of gene B expression level when gene A is perturbed | Xiaodong Wang | Done |
31 | Genetic_code | Hinxton | Allows for alternate genetic codes for Mitocondria and selenocysteine. | Done | |
32 | GO_code | Caltech | Used to capture the evidence (eg., 'IMP', Inferred from Mutant Phenotype) on which a GO annotation is based. | Ranjana Kishore, Kimberly Van Auken | Done |
33 | GO_term | Caltech | Used to capture the GO term name which belongs to either the biological process, cellular component or molecular function ontology developed by the GO consortium. | Ranjana Kishore, Kimberly Van Auken | Done |
34 | Grid | Hinxton | Old data? do we still nedd it? | Done | |
35 | Grid_data | Hinxton | Target for removal - Unused class, no data in WS218 | Done | |
36 | Grid_row | Hinxton | Target for removal - Unused class, no data in WS218 | Done | |
37 | Homol_data | Hinxton | Used for storing alignment data | Done | |
38 | Homology_group | Caltech | That is used to store information about KOGS/eggNOGS/etc. | Done | |
39 | Interaction | Caltech | ? | Chris & Kimberly | Done |
40 | Interval_col_conf | ? | Poss target for removal as it's not used. | Done | |
41 | Jade | Acedb? | ? | Done | |
42 | #Lab_Location | No one uses this hash, poss remove? | Done | ||
43 | Laboratory | Caltech | ? | Done | |
44 | Library | Hinxton | libraries used for sequencing of nematode ESTs // Information to come from Mark Blaxters (This might be good for C. elegans seq project data?) | Done | |
45 | Life_stage | Caltech | Developmental life stages for C. elegans. | Wen Chen | Done |
46 | Locus | Hinxton | This class is a remnant that should be cleaned up. - Lots of unused tags, a priority for cleanup. | Done | |
47 | ManyMap | AceDB | Internal class as the xace .c code is aware of it. | N/A | Done |
48 | Map | AceDB | Internal class? | N/A | Done |
49 | Map_error | AceDB | Internal class? | N/A | Done |
50 | Map_offset | Hinxton | Internal class? | N/A | Done |
51 | Map_position | AceDB | Internal class? | N/A | Done |
52 | Mass_spec_experiment | Hinxton | This gives details of a mass-specttrometry experiment and XREFS the mass-spec peptides produced by that experiment | Gary Williams | Done |
53 | Mass_spec_peptide | Hinxton | This gives the sequence of a mass-spectrometry peptide. | Gary Williams | Done |
54 | Method | ? | AceDB class that details display etc. of objects in the other classes | Done | |
55 | Microarray | Caltech | This model describes microarray platforms, each object is a type of microarray chip. | Wen Chen | Done |
56 | Microarray_experiment | Caltech | This model describes microarray experiments, each object is an independent experiment. | Wen Chen | Done |
57 | Microarray_results | Caltech | This model describes spots of each microarray chip, each object is a spot on a type of microarray platform. | Wen Chen | Done |
58 | Mixed_grid_row | Hinxton | ? | Done | |
59 | Molecule | Caltech | Used to capture molecules that influence gene activity and phenotypes. | Karen Yook | Done |
60 | Motif | Hinxton | ? | Done | |
61 | Movie | Caltech | This class needs fleshing out with descriptive data as the majority of the tags are enpty. | Done | |
62 | Multi_counts | Tied in with multi_ptd_data | Un-used so could possibly be retired? | Done | |
63 | MultiMap | ? | Not used - Acedb source code looks for this class, Keep. | Done | |
64 | Multi_pt_data | Hinxton | ? | Done | |
65 | Neurodata | ? | ?Not Used | Raymond | Done |
66 | Neuro_location | ? | ? Not Used | Raymond | Done |
67 | Oligo | ? | ? | Done | |
68 | Oligo_set | ? | ? | Done | |
69 | Operon | Hinxton | Stores genes that are in Operons | Paul Davis | Done |
70 | Paper | Caltech | Stores information about published papers, gazette articles, and meeting abstracts | Kimberly Van Auken | Done |
71 | PCR_product | ? | ? | Done | |
72 | Person | Caltech | ? | Cecilia Nakamura | Done |
73 | Person_name | Caltech | ? | Done | |
74 | Phenotype | Caltech | This model is used for the phenotype ontology and the objects that phenotypes are assigned to. | Gary Schindleman | Done |
75 | Phenotype_Assay | Caltech | Unused class in WS218 (Could be removed if we run low on classes) | Done | |
76 | Phenotype_name | Caltech | ? | Done | |
77 | Picture | Caltech | This model has been reworked removing unused tags | Daniela Raciti | Review complete |
78 | Position_Matrix | Caltech | Annotate experimentally well-validated DNA-binding profiles and individual binding sites for transcription factors (TFs) | Xiaodong Wang | Done |
79 | Pos_neg_data | Hinxton | ? | Done | |
80 | Protein | Hinxton | ? | Done | |
81 | Pseudogene | Hinxton | Stores the Pseudogene models | Done | |
82 | Rearrangement | Hinxton, Caltech (phenotypes) | Caltech curates phenotypes of rearrangements. Sequence and object curation occurs at Hinxton. Changes to the model needed to be approved by Hinxton curators. | Karen Yook (phenotype) | Done |
83 | #ReconCellInfo | OICR | Done | ||
84 | Reconstruction | OICR | ? | Done | |
85 | Reference | Caltech | Target for removal - Unused data class, appears to have been replaced by paper (need to check acedb dependencies) | Done | |
86 | RNAi | Caltech | Stores information pertaining to RNAi experiments, including RNAi probe targets, resulting phenotypes, and associated papers. | Gary Schindelman, Chris Grove | Done |
87 | SAGE_experiment | Hinxton | Could we not combine this with the ?Analysis class? | Wen Chen | Done |
88 | SAGE_tag | Hinxton | ? | Wen Chen | Done |
89 | Sequence | Hinxton | A broad class for storing genomic, Transcripts Sequence etc. | Done | |
90 | SK_map | Caltech | ? | Done | |
91 | SO_term | Caltech | ? | Done | |
92 | Species | Hinxton | ? | Done | |
93 | Strain | Hinxton | ? | Done | |
94 | Structure_data | OICR | ? | Done | |
95 | #Timepoint | OICR | ? | Done | |
96 | Transcript | Hinxton | Stores RNAgenes and the Full length Coding_transcripts | Done | |
97 | Transgene | Caltech | Used for capturing extrachromosomal and integrated genomic arrays used as tissue/cell markers, for rescuing genetic mutations, assaying gene function, and effects of gene overexpression. | Wen Chen, Karen Yook | Done |
98 | Transposon | Hinxton | Stores the Transposon span and S_child info | Paul Davis | Done |
99 | Transposon_family | Hinxton | Used for grouping like ?Transposons | Paul Davis | Done |
100 | Variation | Hinxton, Caltech (phenotype) | ? | Mary Ann, Karen Yook (phenotype aspect) | Done |
101 | Variation_name | Hinxton | ? | Mary Ann | Done |
102 | YH | Caltech | ? | Xiaodong Wang | Done |
103 | #Address | Caltech | This hash should be used in place of all address fields in other models. | Done | |
104 | #Mass_spec_data | Hinxton | Describes details of a mass-spectrometry peptide | Gary Williams | Done |
105 | #Phenotype_info | Caltech | Information attached to an object concerning a particular phenotype | Wen Chen, Gary Schindelman, Karen Yook | Done |
106 | #Feature_info | Done | |||
107 | #SAGE_mapping_info | Done | |||
108 | #SAGE_data | Done | |||
109 | #SMap_info | Done | |||
110 | #Homol_info | Hinxton | Stores Homology Data (BLAST/BLAT) | Michael Paulini | Done |
Models added post WS218
No. | Class | Institute | Comment/Brief Description | Curator(s) | Status |
---|---|---|---|---|---|
WBProcess | Caltech | For WormBase Biological Topics pages added for WS225 | Karen | ||
Gene and Disease Ontology | Caltech | C. elegans as a model system to study disease and disease genes added WS236 | Ranjana | ||
Construct | Caltech | Standardizing the curation of DNA plasmids used for generating variations and transgenes, and used for gene expression or gene regulation analysis | Karen, Daniela, Chris, Mary Ann, Xiaodong |
Action Targets
1) If you check your models I have started listing all unused tags in the bottom section of each page.
2) 3d_data and Structure_data should be merged?
3) All address info should get stored in the #Address hash Currently only used in the Person class, should unify all models to use the Address hash
4) Author class should use #Address
5) Could we add species to all datasets.
Model Change Summaries
This section is used by the model curator to document the changes in a given release and should not be edited by anyone other than the Model Curator (Paul Davis)
It was decided to move this out of the normal CVS comments section coming from sanger, the CVS will now contain a link to the appropriate wiki page.