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  • WS246 Models.wrm
    == Model changes for WS246 == * This cycle we see 6 model changes effecting 7 classes:
    3 KB (413 words) - 15:51, 18 September 2014
  • WormBase-Caltech Weekly Calls July 2019
    * Wen and Raymond now have access to outreach@wormbase.org account; will upload videos ...he is interested in putting up microinjection videos online; linkable from WormBase?
    3 KB (427 words) - 15:32, 1 August 2019
  • WBConfCall 2019.02.21-Agenda and Minutes
    ...Two ParaSite developers are less integrated into WormBase. They aren't on wormbase-help,. eg. ** https://github.com/WormBase/website/issues/6929
    995 bytes (143 words) - 16:59, 21 February 2019
  • WormBase-Caltech Weekly Calls February 2016
    * We will need to learn to model in Datomic to start building curation tools that run off of Datomic ...ill want to build a curation tool directly on top of Datomic; will need to model currently un-dumped fields in Datomic
    4 KB (571 words) - 16:48, 3 March 2016
  • WormBase gene association file
    ...le/archive here] for an archive of outdated/obsolete information about the WormBase gene association file. == WormBase ontology gene association files ==
    12 KB (1,718 words) - 17:45, 5 February 2021
  • WormBase Model:Condition
    [[WormBase Models]] == Model ==
    2 KB (183 words) - 22:58, 6 December 2010
  • User Guide 2010:TOC
    ...a of the model nematode ''Caenorhabditis elegans'' and related nematodes. WormBase is developed by an international consortium of researchers and computer sci *[[UserGuide:General_Description|Overview of WormBase]]
    4 KB (613 words) - 09:23, 30 June 2011
  • WormBase-Caltech Weekly Calls August 2018
    * Can use outreach@wormbase.org for consistency * Shall we move tazendra.caltech.edu to the cloud? Either WormBase cloud or Caltech cloud?
    9 KB (1,366 words) - 15:19, 6 September 2018
  • WormBase Newsletter No. 6, August 2004
    The WS126 release of WormBase last month featured a complete genome with no gaps remaining in the genome == WormBase launches the 'WormBook' project ==
    4 KB (621 words) - 15:38, 24 September 2007
  • WormBase-Caltech Weekly Calls July 2011
    *WormBase - Bitbucket, GitHub (can commit code) *Is WormBase interested connecting to it?
    7 KB (1,117 words) - 16:39, 4 August 2011
  • WBConfCall 2013.10.02-Agenda and Minutes
    Elsevier would like to put a link to Wormbase via adding a logo on the ScienceDirect pages, in the same fashion they are The link to Wormbase will point to the paper page showing the referenced curated data
    3 KB (427 words) - 18:31, 3 October 2013
  • WormBase-Caltech Weekly Calls March 2014
    * ?Construct model === ?Construct model ===
    8 KB (1,218 words) - 17:46, 2 April 2014
  • WormBase-Caltech Weekly Calls May 2021
    * Maybe have clade-specific descriptions based on the popular model (worms based on C. elegans); may be provided in MOD portal page(s) ...ki, EMBL-EBI, A whistle-stop tour of all the types of data you can find in WormBase
    5 KB (670 words) - 15:31, 3 June 2021
  • WormBase-Caltech Weekly Calls July 2015
    === Expression Clusters to Anatomy & Life Stage annotations === * Wen will make the model change proposal
    10 KB (1,464 words) - 17:09, 13 August 2015
  • WormBase-Caltech Weekly Calls April 2019
    * Make modification to ACEDB model? ...ence is held at Université de Montréal on June 2-5, 2019 and will focus on Model systems in cancer research (https://www.fourwav.es/view/1174/info/). The C.
    11 KB (1,676 words) - 15:28, 2 May 2019
  • WormBase Literature Curation Workflow
    =WormBase Curated Data Types and Curation Methods= HMM - Hidden Markov Model
    9 KB (1,174 words) - 18:30, 29 August 2012
  • Gene Expression micropublications
    ...ity scientific findings directly to a well established central repository (WormBase). Data will be publically shared and could be mined alongside data curated ...localization experiments (e.g. ISH, smFISH, immunohistochemistry). If the model will prove to be successful, we will scale it up to include submission of o
    21 KB (3,194 words) - 02:08, 17 May 2018
  • WBConfCall 2014.09.03-Agenda and Minutes
    ...y enthusiastic response from Chris and Nicole about including worm disease model data ...ion.WS245.wb, however this is incomplete since it doesn't have the disease model descriptions, and the manually curated OMIM connections, so also sent them
    5 KB (807 words) - 18:27, 4 September 2014
  • WormBase-Caltech Weekly Calls February 2014
    ** model change to put topics in hierarchical structure. * Life stage-gene associations
    10 KB (1,485 words) - 18:08, 5 March 2014
  • WormBase-Caltech Weekly Calls February 2013
    *Group phenotypes by e.g. anatomy term, life stage, etc.? *Link anatomy terms, life stages to relevant phenotypes (at .ACE level or website level)
    8 KB (1,161 words) - 16:34, 7 March 2013
  • WormBase-Caltech Weekly Calls June 2015
    * I could not find an ontology that was ready built to adopt; few genetic model organisms, of those, FB has the most useful. Other mods use controlled voca * Requested model change for WS250 with new terms.
    6 KB (982 words) - 15:33, 2 July 2015
  • WormBase-Caltech Weekly Calls January 2014
    ...Karen, others are welcome. Visit the construct model requests [http://wiki.wormbase.org/index.php/WormBase_Model:Construct here] ...arned enough Catalyst to create a workable ontology browser on the caltech wormbase sandbox.
    10 KB (1,583 words) - 18:16, 5 February 2014
  • WormBase Models
    = The A - Z of WormBase Models = Document created from [http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=markup&pathrev=WS218 WS218] models.
    16 KB (2,207 words) - 23:06, 9 January 2014
  • WormBase-Caltech Weekly Calls June 2014
    === WormBase Ontology Browser (WOBr) for WS244 release === * Latest GAFs added were for Life Stage and Disease
    6 KB (801 words) - 17:29, 2 July 2014
  • WS233
    New release of WormBase WS233 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    17 KB (2,002 words) - 14:17, 13 September 2012
  • WormBase-Caltech Weekly Calls January 2015
    Main outline [https://docs.google.com/a/wormbase.org/document/d/1l6pExlCMI88pi_-djk8jt7IzNsMDV-nIEY9Z1gBNh-A/edit here]- not [https://docs.google.com/a/wormbase.org/document/d/1mAxrqVIhxDNpkTUBmtu12sAo58pEG763tgASlzy-3JU/ here]
    10 KB (1,453 words) - 18:52, 4 February 2015
  • WormBase-Caltech Weekly Calls November 2018
    * Todd working on a spell.wormbase.org site for doing worm SPELL analyses === Expression Pattern Model ===
    6 KB (906 words) - 15:34, 6 December 2018
  • WormBase-Caltech Weekly Calls August 2012
    ***Anatomy with respect to life stage (e.g. life-stage-specific cells) ***Integrated interaction model, genetic interaction ontology
    12 KB (1,878 words) - 15:55, 6 September 2012
  • WormBase Model:Sequence
    [[WormBase Models]] == Model ==
    12 KB (1,258 words) - 09:29, 5 October 2010
  • Updating go.ace file
    *Update spelling to Descendant in ?GO_term model *Model changes - added Status and Synonym tags.
    15 KB (1,936 words) - 16:29, 29 June 2018
  • WormBase-Caltech Weekly Calls September 2016
    ...uld be great to consolidate data to directly connect genes to anatomy/life stage * adding a Community_curator tag or Curator tag in the Expression model to acknowledge the community curators that annotated/will annotate the data
    9 KB (1,490 words) - 15:35, 6 October 2016
  • Gene Regulation
    == Interaction Model as of WS231 == ...ed ?Physical_interaction model has also been consolidated into this larger model. Note that #Interaction_info and #Interaction_type have been deprecated.
    59 KB (8,367 words) - 22:00, 14 December 2018
  • WormBase-Caltech Weekly Calls May 2014
    === WormBase Ontology Browser (WOBr) === * http://juancarlos.wormbase.org/tools/ontology_browser
    8 KB (1,234 words) - 12:36, 4 June 2014
  • Gene Interaction/archive
    ...ibing an interactor entity or condition that does not fall into a standard WormBase category WBProcess ?WBProcess XREF Interaction // WormBase biological process associated with the interaction
    50 KB (5,228 words) - 15:10, 21 July 2017
  • WormMine
    [http://intermine.wormbase.org/tools/wormmine/begin.do WormMine] [https://github.com/WormBase/intermine WormMine Github]
    15 KB (2,088 words) - 16:16, 15 October 2020
  • RNAi/archive
    ...ing author; for a list of all labs' two-letter codes look here: http://www.wormbase.org/db/misc/laboratory?name=*;class=laboratory), date of publication (accep ...ion. This information includes Strain/Genotype, treatment conditions, life stage, dsRNA delivery method (e.g. bacterial feeding), Phenotype observed (or not
    47 KB (7,989 words) - 23:40, 1 September 2015
  • VariationConciseDescriptions
    ...ercontent.com/WormBase/wormbase-pipeline/master/wspec/models.wrm variation model]<br> ...larval development, formation of the developmentally arrested dauer larval stage (diapause),
    36 KB (5,076 words) - 01:38, 2 March 2016
  • WormBase-Caltech Weekly Calls July 2020
    ...could make sure their ontology file headers (WB anatomy ontology, WB life stage, etc.) conformed to obo file header specifications, then it would be easy t * Will work on GO-CAMs and build a relevant model(s)
    9 KB (1,369 words) - 22:47, 5 August 2020
  • WormBase-Caltech Weekly Calls April 2014
    * Testing at juancarlos.wormbase.org (from there go to Tools > Ontology Browser) ** Add a Reactome display to WormBase?
    10 KB (1,474 words) - 15:54, 30 April 2014
  • RNAi
    == RNAi Data Model == This is the ?RNAi data model as of WormBase Release WS251:
    29 KB (4,152 words) - 20:29, 30 July 2019
  • WormBase-Caltech Weekly Calls January 2017
    * Who from WormBase will go? * Working out how inferred annotations propagate from Noctua/LEGO model to GAF
    9 KB (1,377 words) - 16:44, 2 February 2017
  • WormBase-Caltech Weekly Calls May 2018
    *[https://github.com/WormBase/website/issues/6423 Not sure if this falls under content....] *Working on new model for importing RO terms into WormBase
    14 KB (2,226 words) - 15:31, 7 June 2018
  • WS230
    New release of WormBase WS230 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    17 KB (1,950 words) - 09:37, 7 February 2012
  • Topic pages
    **process pages will dissect the chapters and link them to entities in WormBase, Model changes for WS243 - added Specialisation_of and Generalisation_of tags, rem
    20 KB (3,088 words) - 19:17, 13 August 2020
  • Expression Pattern
    Current model (WS280) Anatomy_term ?Anatomy_term //combines life stage with anatomy term in expr pattern annotation
    104 KB (15,303 words) - 19:39, 11 May 2023
  • Pictures
    ==Picture Data Model== ...ta from the literature and individual laboratories and display them in the WormBase gene expression page.
    120 KB (19,719 words) - 16:44, 20 October 2023
  • ISB2014 Session4 Microbial Informatics
    Karen Yook/wormbase- Caltech/@wbperson712 set the stage for the talks
    29 KB (4,082 words) - 19:15, 11 April 2014
  • Concise Descriptions
    http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=log ...ng the format Exprnnnn where n is a number; these values correspond to the WormBase ID of the Expr_pattern object; individual entries are comma-separated.
    47 KB (6,852 words) - 04:27, 8 December 2020
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