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  • WormBase Model:Database
    [[WormBase Models]] == Model ==
    1 KB (116 words) - 09:36, 4 October 2010
  • AceDB classes
    ...ist of the most prominent classes in use in the AceDB database employed by WormBase. To display the current model of any class, include the following text in your documentation:
    4 KB (568 words) - 11:06, 23 May 2011
  • WormBase Model:Library
    [[WormBase Models]] == Model ==
    930 bytes (84 words) - 14:02, 4 October 2010
  • WormBase Model:Accession number
    [[WormBase Models]] == Model ==
    1 KB (141 words) - 10:05, 15 November 2011
  • WormBase Model:3d data
    [[WormBase Models]] == Model ==
    2 KB (133 words) - 09:56, 10 August 2010
  • WormBase Model:WBProcess
    [[WormBase Models]] == Model ==
    3 KB (275 words) - 01:07, 6 February 2014
  • WormBase Model:Mass spec experiment
    [[WormBase Models]] == Model ==
    2 KB (184 words) - 08:38, 17 August 2010
  • WormBase Model:Picture
    [[WormBase Models]] ''Pick_me_to_call'' -- untouched from existing model
    3 KB (320 words) - 10:55, 10 December 2010
  • WormBase Model:Homology group
    [[WormBase Models]] == Model ==
    2 KB (193 words) - 11:11, 23 May 2011
  • WormBase database schema
    The majority of the data stored within WormBase is held in an ACeDb database. ...ned centrally in a file called [http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=log models.wrm]
    2 KB (379 words) - 22:06, 10 October 2013
  • WormBase Model:Structure data
    [[WormBase Models]] == Model ==
    2 KB (192 words) - 09:45, 5 October 2010
  • WormBase Model:Analysis
    [[WormBase Models]] == Model ==
    1 KB (104 words) - 10:38, 10 August 2010
  • Rnaseq library details
    == Model == DB_info Database ?Database ?Database_field UNIQUE ?Accession_number // the various SRA and GEO IDs for
    3 KB (252 words) - 16:46, 9 January 2014
  • WS227 Models.wrm
    == Model Changes == DB_info Database ?Database ?Database_field ?Accession_number Text //For Darin genbank genpep ids
    3 KB (306 words) - 10:00, 26 October 2011
  • UserGuide:Display Tools
    Various Displays of WormBase Data: Most result pages in WormBase contain a submenu below the main menu and WormBase logo. The submenu usually is for different kinds of display. There are thre
    2 KB (266 words) - 18:26, 17 August 2010
  • WebDev 2016.02.23-Agenda and Minutes
    - Had conversation with GO people about gene model graph, will work on this visualization after WS252 development ...pollo people on handling subtracks, there is an example in the [http://dev.wormbase.org:10004/index.html?data=data%2Fc_elegans_simple&loc=I%3A9861261..9879060&
    3 KB (478 words) - 15:41, 23 February 2016
  • WormBase Model:Protein
    [[WormBase Models]] == Model ==
    2 KB (305 words) - 08:49, 5 October 2010
  • WBConfCall 2014.12.4-Agenda and Minutes
    All model changes currently planned for WS247 are on the [http://wiki.wormbase.org/index.php/WS247_Models.wrm WS247 Models wiki page] ...new model for GO annotations that will allow us to have all GO curation in WormBase.
    2 KB (288 words) - 16:54, 4 December 2014
  • WormBase Model:Pseudogene
    [[WormBase Models]] == Model ==
    3 KB (223 words) - 09:22, 10 August 2010
  • Software for nematode research
    WormBase makes use of the following open-source software projects: *[http://www.gmod.org Generic Model Organism Database Project (GMOD)]
    2 KB (284 words) - 22:43, 16 August 2010
  • WS185
    New release of WormBase WS185, Wormpep185 and Wormrna185 Fri Nov 30 17:11:38 GMT 2007 i) database.WS185.*.tar.gz - compressed data for new release
    6 KB (680 words) - 07:37, 11 January 2008
  • WormBase Model:Motif
    [[WormBase Models]] == Model ==
    2 KB (200 words) - 15:32, 4 October 2010
  • December 15, 2010
    ;item 2 - Database Display Changes For Interactions ;item 3 - Interaction Model (slides 4-5, attached .ppt in documents distributed section)
    3 KB (475 words) - 22:50, 17 December 2010
  • WS186
    New release of WormBase WS186, Wormpep186 and Wormrna186 Fri Dec 21 08:57:59 GMT 2007 i) database.WS186.*.tar.gz - compressed data for new release
    6 KB (683 words) - 05:51, 3 April 2008
  • AceOjbect Redesign Page
    == The A - Z of Ace Model and Redesign Page == ...ndex of available Ace classses; see the [https://spreadsheets.google.com/a/wormbase.org/ccc?key=tygSYCz49YW5hyCcYMHUZ1Q#gid=2 Google Doc] for migration status.
    12 KB (1,559 words) - 18:14, 15 June 2011
  • WormBase Model:RNAi
    [[WormBase Models]] == Model ==
    3 KB (312 words) - 15:14, 15 July 2010
  • WS183
    New release of WormBase WS183, Wormpep183 and Wormrna183 Tue Oct 16 16:18:34 BST 2007 i) database.WS183.*.tar.gz - compressed data for new release
    7 KB (800 words) - 10:01, 8 November 2007
  • NBC sign off documentation
    * File in /usr/local/wormbase/databases/{RELEASE}/orthology and automatically generated by orthology data ...h the associations available from the orthology data compile -- /usr/local/wormbase/databases/{RELEASE}/orthology/go_id2omim_ids.txt
    4 KB (583 words) - 20:22, 29 July 2011
  • WBConfCall 2013.10.17-Agenda and Minutes
    ==database URL/URIs== **website flat file only with only database name and description stored in acedb
    2 KB (361 words) - 16:32, 17 October 2013
  • WS184
    ew release of WormBase WS184, Wormpep184 and Wormrna184 Thu Nov 8 12:09:34 GMT 2007 i) database.WS184.*.tar.gz - compressed data for new release
    7 KB (831 words) - 07:36, 11 January 2008
  • INTRODUCTION
    ...l traits such as gene expression patterns and neuronal connectivity. Also, WormBase contains sequence and gene structures of ''C. briggsae'' and ''C. remanei'' ...vailable in September, 2005 (WS147 release; BioPerl/Generic Model Organism Database software).
    2 KB (365 words) - 00:06, 1 December 2010
  • WormBase Model:Transcript
    [[WormBase Models]] == Model ==
    4 KB (350 words) - 09:32, 17 June 2013
  • Alliance - migrating WormBase papers to Alliance ABC
    ** During the call earlier we talked about the ?Paper model having ...ized that we can also get ORCID for authors from pubmed, so we should also model for that. In ?Person that's modeled like
    3 KB (492 words) - 18:48, 17 March 2021
  • BASIC PROTOCOL 2: PERFORMING A DATABASE SEARCH
    This protocol presents how to conduct a general search of WormBase ...king on the Home link at the top left of any WormBase Web page (http://www.wormbase.org/wiki/index.php/Image:Fig_1_8_01.png).
    3 KB (545 words) - 19:56, 11 August 2010
  • WormBase Model:Paper
    [[WormBase Models]] == Model ==
    5 KB (471 words) - 16:07, 4 October 2010
  • WormBase Model:Anatomy term
    [[WormBase Models]] == Model ==
    5 KB (484 words) - 10:42, 10 August 2010
  • Disease and Drugs
    ==C. elegans as a model system to study disease and disease genes== ...g of new ones, based on the published literature, where elegans is used to model the biology of a disease and/or the orthologous elegans gene function is st
    5 KB (782 words) - 20:56, 8 January 2020
  • Main Page
    ...is elegans] and related nematodes. WormBase is developed by an [http://www.wormbase.org/about/staff#01--10 international consortium] of researchers and compute *November 2020 -- ''[https://wiki.wormbase.org/images/Elections_Subcommittee_Proposal_toWBvote.docx Election Subcommit
    5 KB (646 words) - 17:11, 25 November 2020
  • WBConfCall 2019.08.15-Agenda and Minutes
    ...l to discuss this with Ranjana to see if there is a better solution at the database level to make the downstream work easier. https://github.com/WormBase/website/issues/7187
    1 KB (165 words) - 18:42, 15 August 2019
  • Movie
    ==Movie Data Model== DB_INFO ?Database ?Database_field Text #added Oct2013 DR
    5 KB (814 words) - 18:48, 17 September 2018
  • WormBase Model:Feature
    [[WormBase Models]] ...model and unused tags for WS245 elegans data from pre-merged BUILD/elegans database.
    4 KB (394 words) - 08:39, 16 September 2014
  • Regional and Topical Meetings
    ...und the world. WormBase includes the abstracts from these meetings in our database. ...getting the regional and topical meeting abstracts into postgres and then WormBase.
    1 KB (201 words) - 16:34, 15 October 2012
  • WBConfCall 2021.03.04-Agenda and Minutes
    * Chrome failing to download ftp data [https://github.com/WormBase/website/issues/8087 #8087] ** Harmonized Alliance model would be persistent and integrated.
    4 KB (743 words) - 12:22, 5 March 2021
  • WormBase Model:Molecule
    [[WormBase Models]] DB_info Database ?Database ?Database_field ?Text //links molecule to ChEBI, CTD, KEGG, UniProt
    6 KB (543 words) - 23:29, 15 March 2016
  • WormBase-Caltech Weekly Calls March 2014
    * ?Construct model === ?Construct model ===
    8 KB (1,218 words) - 17:46, 2 April 2014
  • WS236 Models.wrm
    Database ?Database ?Database_field ?Accession Model changes to ?Gene and ?Transposon
    8 KB (1,073 words) - 15:31, 14 December 2012
  • WormBase-Caltech Weekly Calls August 2011
    *Daniela spoke with Mihail about getting pictures from their database *Linking to Yuji Kohara's database (NEXTDB)?
    4 KB (650 words) - 17:08, 1 September 2011
  • 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
  • Main Page Temp
    ...cial wiki site for [http://www.wormbase.org WormBase], the database of the model organism [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditi WormBase is developed by an [http://www.wormbase.org/about/staff#01--10 international consortium] of researchers and compute
    4 KB (507 words) - 08:46, 8 October 2014
  • Website:Molecule Object Widget Requirements Specification
    This document describes the WebApp requirements for: ''a new WormBase Molecule widget''. <br/> These requirements originate from: [[User:Kyook|Karen Yook]], a CalTech-based WormBase curator.
    1 KB (209 words) - 19:57, 25 July 2012
  • Hinxton 2015.08- Meeting minutes
    === Database migration === * Further discussed capturing/registering when a curator has reviewed a gene model but not made a change
    5 KB (741 words) - 10:57, 21 August 2015
  • WormBase-Caltech Weekly Calls January 2012
    *BioGRID, Gene Orienteer, Interolog database, etc. *Interolog database
    5 KB (847 words) - 17:49, 1 March 2012
  • WormBase-Caltech Weekly Calls December 2013
    * There are papers in the WormBase collection that are used as paper evidence for some concise descriptions === Database changes to WormBase ===
    6 KB (823 words) - 19:38, 2 January 2014
  • WS146
    <pre>New release of WormBase WS146, Wormpep146 and Wormrna146 Thu Jul 28 14:01:21 BST 2005 i) database.WS146.*.tar.gz - compressed data for new release
    6 KB (670 words) - 11:09, 21 December 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 August 2014
    * Collecting model/pathway diagrams from papers and reviews: should we make ?Picture objects f === WormBase Ontology Browser ===
    6 KB (974 words) - 17:28, 3 September 2014
  • WS175
    New release of WormBase WS175, Wormpep175 and Wormrna175 Fri May 4 16:29:43 BST 2007 i) database.WS175.*.tar.gz - compressed data for new release
    6 KB (680 words) - 10:54, 21 December 2011
  • WormBase Model:Interaction
    [[WormBase Models]] == Old Model ==
    12 KB (1,431 words) - 19:06, 20 March 2012
  • WS187
    New release of WormBase WS187, Wormpep187 and Wormrna187 Fri Jan 25 20:22:16 GMT 2008 i) database.WS187.*.tar.gz - compressed data for new release
    6 KB (647 words) - 16:43, 21 December 2011
  • WormBase-Caltech Weekly Calls December 2015
    * Curators will likely need to work with a models "master" to make model changes * http://juancarlos.wormbase.org , look at a gene page, open Phenotype Graph widget
    5 KB (776 words) - 16:50, 7 January 2016
  • WS192
    <pre>New release of WormBase WS192, Wormpep192 and Wormrna192 Tue Jun 24 11:23:32 BST 2008 i) database.WS192.*.tar.gz - compressed data for new release
    6 KB (763 words) - 10:43, 21 December 2011
  • WBConfCall 2021.07.01-Agenda and Minutes
    Ticket: https://github.com/WormBase/website/issues/8296 ...exception in WormBase::Web::Controller::Tools->tools "Could not connect to database acedb _WS280, host: 7e85f19c6634"
    2 KB (347 words) - 14:07, 2 July 2021
  • WormBase Model:CDS
    [[WormBase Models]] == Model ==
    4 KB (410 words) - 17:08, 17 August 2010
  • WormBase-Caltech Weekly Calls February 2015
    * What implications does this have for the WormBase Ontology Browser? * WS247 database will not be ready with enough time for Ranjana and James to incorporate int
    8 KB (1,120 words) - 16:19, 5 March 2015
  • WBConfCall 2017.03.16-Agenda and Minutes
    === Datomic model for external links === * Hinxton will work on simplifying the model
    3 KB (493 words) - 16:08, 16 March 2017
  • 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
  • WS198
    <pre>New release of WormBase WS198, Wormpep198 and Wormrna198 Thu Dec 18 19:31:36 GMT 2008 i) database.WS198.*.tar.gz - compressed data for new release
    6 KB (692 words) - 16:51, 21 December 2011
  • WS196
    <pre>New release of WormBase WS196, Wormpep196 and Wormrna196 Fri Oct 31 16:00:42 GMT 2008 i) database.WS196.*.tar.gz - compressed data for new release
    6 KB (748 words) - 16:41, 21 December 2011
  • Website:Application overview
    -rw-rw-rw- wormbase.conf ...(henceforth "the web application") and a series of external models in the WormBase::API namespace.
    10 KB (1,357 words) - 14:03, 19 June 2014
  • WormBase-Caltech Weekly Calls August 2013
    *We have frequent database dumps that can be read for stats AMIGO2 (Wormbase Ontology Browser)
    5 KB (850 words) - 15:32, 5 September 2013
  • WS160
    New release of WormBase WS160, Wormpep160 and Wormrna160 Thu Jun 15 16:29:46 BST 2006 i) database.WS160.*.tar.gz - compressed data for new release
    6 KB (706 words) - 10:50, 21 December 2011
  • WS204
    New release of WormBase WS204, Wormpep204 and Wormrna204 Fri Jun 26 20:17:06 BST 2009 i) database.WS204.*.tar.gz - compressed data for new release
    6 KB (648 words) - 16:16, 21 December 2011
  • 2014 Advisory Board Meeting
    *** database migration *** ParaSite and integration with WormBase central.
    3 KB (438 words) - 07:19, 6 October 2014
  • WS199
    <pre>New release of WormBase WS199, Wormpep199 and Wormrna199 Tue Feb 3 12:09:54 GMT 2009 i) database.WS199.*.tar.gz - compressed data for new release
    6 KB (661 words) - 16:51, 21 December 2011
  • WormBase-Caltech Weekly Calls November 2011
    *Does CIT need to worry about consistency of gene IDs over database builds? *WormBase communicate/work with DCC personnel for data wrangling during post-DCC era?
    4 KB (612 words) - 17:13, 1 December 2011
  • WS173
    New release of WormBase WS173, Wormpep173 and Wormrna173 Fri Mar 23 18:22:22 GMT 2007 i) database.WS173.*.tar.gz - compressed data for new release
    6 KB (639 words) - 10:55, 21 December 2011
  • Relations Ontology
    ...ntology] is used in WormBase to describe relations between entities in the database, e.g. genes and GO terms. *The Relations Ontology was first incorporated into WormBase with the WS267 release.
    3 KB (453 words) - 18:27, 20 September 2023
  • Specifications for a DAF for gene-disease data
    ...parate AGR orthology pipeline to link human genes and their orthologs from model organisms. !Project_name: WormBase (WB) Version WS258
    10 KB (1,599 words) - 18:53, 24 January 2019
  • WS172
    <nowiki>New release of WormBase WS172, Wormpep172 and Wormrna172 Fri Mar 2 16:35:57 GMT 2007 i) database.WS172.*.tar.gz - compressed data for new release
    7 KB (783 words) - 10:55, 21 December 2011
  • WS171
    <nowiki>New release of WormBase WS171, Wormpep171 and Wormrna171 Thu Feb 8 15:28:27 GMT 2007 i) database.WS171.*.tar.gz - compressed data for new release
    6 KB (652 words) - 10:55, 21 December 2011
  • WS206
    New release of WormBase WS206, Wormpep206 and Wormrna206 Fri Aug 28 13:06:57 BST 2009 i) database.WS206.*.tar.gz - compressed data for new release
    7 KB (796 words) - 16:46, 21 December 2011
  • WS191
    <pre>New release of WormBase WS191, Wormpep191 and Wormrna191 Mon Jun 2 09:50:52 BST 2008 i) database.WS191.*.tar.gz - compressed data for new release
    6 KB (756 words) - 16:53, 21 December 2011
  • WS203
    New release of WormBase WS203, Wormpep203 and Wormrna203 Thu May 28 13:24:17 BST 2009 i) database.WS203.*.tar.gz - compressed data for new release
    6 KB (662 words) - 16:50, 21 December 2011
  • WS163
    <pre>New release of WormBase WS163, Wormpep163 and Wormrna163 Thu Aug 17 10:49:02 BST 2006 WS163 was built by Paul Davis [paul.davis@wormbase.org]
    6 KB (645 words) - 10:57, 21 December 2011
  • WS147
    <pre>New release of WormBase WS147, Wormpep147 and Wormrna147 Thu Aug 18 16:59:45 BST 2005 i) database.WS147.*.tar.gz - compressed data for new release
    7 KB (815 words) - 11:09, 21 December 2011
  • WS158
    <pre>New release of WormBase WS158, Wormpep158 and Wormrna158 Thu May 4 13:10:59 BST 2006 WS158 was built by Paul Davis [paul.davis@wormbase.org]
    6 KB (673 words) - 11:07, 21 December 2011
  • WS209
    New release of WormBase WS209, Wormpep209 and Wormrna209 Fri Nov 27 11:57:36 GMT 2009 i) database.WS209.*.tar.gz - compressed data for new release
    6 KB (687 words) - 16:50, 21 December 2011
  • WS197
    <pre>New release of WormBase WS197, Wormpep197 and Wormrna197 Wed Nov 26 19:40:37 GMT 2008 i) database.WS197.*.tar.gz - compressed data for new release
    6 KB (672 words) - 16:43, 21 December 2011
  • WS201
    New release of WormBase WS201, Wormpep201 and Wormrna201 Wed Mar 25 15:30:27 GMT 2009 i) database.WS201.*.tar.gz - compressed data for new release
    6 KB (665 words) - 16:42, 21 December 2011
  • WS205
    New release of WormBase WS205, Wormpep205 and Wormrna205 Wed Jul 22 10:29:27 BST 2009 i) database.WS205.*.tar.gz - compressed data for new release
    6 KB (711 words) - 16:31, 21 December 2011
  • 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
  • Old pipeline for disease data
    '''Field 4 Experimental model for (dis_humandoid):''' <br/ > '''Field 9 OMIM disease for Exp Mod(dis_dbexpmod):''' Database for Exp Mod <br/ >
    14 KB (2,085 words) - 20:27, 7 July 2022
  • WBConfCall 2015.06.04-Agenda and Minutes
    ...l have setup the community curation portal page on staging: http://staging.wormbase.org/about/userguide/submit_data#0--10 == GO term enrichment (TE) tool for WormBase ==
    3 KB (539 words) - 10:56, 5 June 2015
  • WS176
    new release of WormBase WS176, Wormpep176 and Wormrna176 Mon May 21 11:58:06 BST 2007 i) database.WS176.*.tar.gz - compressed data for new release
    7 KB (783 words) - 10:46, 21 December 2011
  • WS214
    New release of WormBase WS214, Wormpep214 and Wormrna214 Tue Apr 27 15:37:39 BST 2010 i) database.WS214.*.tar.gz - compressed data for new release
    6 KB (709 words) - 16:49, 21 December 2011
  • WS182
    New release of WormBase WS182, Wormpep182 and Wormrna182 Thu Sep 27 11:59:39 BST 2007 i) database.WS182.*.tar.gz - compressed data for new release
    6 KB (716 words) - 16:48, 21 December 2011
  • WS181
    New release of WormBase WS181, Wormpep181 and Wormrna181 Fri Sep 7 11:40:20 BST 2007 i) database.WS181.*.tar.gz - compressed data for new release
    8 KB (885 words) - 16:47, 21 December 2011
  • WBConfCall 2020.07.16-Agenda and Minutes
    * Protein aligner appears to be broken: https://github.com/WormBase/website/issues/7793 **Formally refer to the standard HGNC human gene in disease model curation and other types of curation
    3 KB (529 words) - 18:26, 16 July 2020
  • WS208
    New release of WormBase WS208, Wormpep208 and Wormrna208 Tue Oct 27 13:31:22 GMT 2009 i) database.WS208.*.tar.gz - compressed data for new release
    5 KB (581 words) - 16:50, 21 December 2011
  • WS212
    <pre>New release of WormBase WS212, Wormpep212 and Wormrna212 Mon Mar 1 11:51:04 GMT 2010 i) database.WS212.*.tar.gz - compressed data for new release
    5 KB (582 words) - 11:16, 21 December 2011
  • WS112
    <pre>New release of WormBase WS112, Wormpep112 and Wormrna112 Fri Oct 17 18:38:57 BST 2003 i) database.WS112.*.tar.gz - compressed data for new release
    6 KB (735 words) - 11:17, 21 December 2011
  • WS210
    New release of WormBase WS210, Wormpep210 and Wormrna210 Tue Dec 22 12:35:31 GMT 2009 i) database.WS210.*.tar.gz - compressed data for new release
    6 KB (721 words) - 16:46, 21 December 2011
  • WS213
    New release of WormBase WS213, Wormpep213 and Wormrna213 Tue Mar 23 16:36:18 GMT 2010 i) database.WS213.*.tar.gz - compressed data for new release
    6 KB (764 words) - 16:45, 21 December 2011
  • Meloidogyne hapla
    ...his database, termed HapPep3, available from the Superfamily repository of model organism proteomes ([http://supfam.mrc-lmb.cam.ac.uk/SUPERFAMILY http://sup == Data on WormBase ==
    3 KB (462 words) - 16:11, 15 December 2011
  • WS188
    New release of WormBase WS188, Wormpep188 and Wormrna188 Fri Feb 29 14:53:33 GMT 2008 WS188 was built by [Michael Han (michael.paulini@wormbase.org)]
    6 KB (769 words) - 11:01, 21 December 2011
  • WormBase Model:Clone
    [[WormBase Models]] == Model ==
    10 KB (1,176 words) - 22:24, 18 March 2014
  • WS138
    <pre>New release of WormBase WS138, Wormpep138 and Wormrna138 Thu Jan 20 11:55:33 GMT 2005 i) database.WS138.*.tar.gz - compressed data for new release
    6 KB (740 words) - 11:19, 21 December 2011
  • WS178
    New release of WormBase WS178, Wormpep178 and Wormrna178 Wed Jul 4 12:56:45 BST 2007 i) database.WS178.*.tar.gz - compressed data for new release
    7 KB (762 words) - 10:53, 21 December 2011
  • WBConfCall 2015.12.03-Agenda and Minutes
    ** chromosome map tool (https://github.com/WormBase/website/issues/1103). Requires comment from web team ==WormBase Survey==
    4 KB (684 words) - 19:43, 5 December 2015
  • WBConfCall 2014.09.03-Agenda and Minutes
    ...bridging December January for WS247 or start WS247 as nornal releasing the database at the end of December? ...y enthusiastic response from Chris and Nicole about including worm disease model data
    5 KB (807 words) - 18:27, 4 September 2014
  • WS211
    <pre>New release of WormBase WS211, Wormpep211 and Wormrna211 Fri Jan 29 13:26:05 GMT 2010 i) database.WS211.*.tar.gz - compressed data for new release
    6 KB (766 words) - 16:38, 21 December 2011
  • WBConfCall 2018.06.21-Agenda and Minutes
    * http://wiki.wormbase.org/index.php/2018_Advisory_Board_Meeting *?RO_term proposal sent to models@wormbase list
    4 KB (691 words) - 17:16, 21 June 2018
  • WormBase-Caltech Weekly Calls October 2013
    === WormBase Ontology Browser (WOBr) === *Daniela will add a Database tag to the ?Movie class
    13 KB (1,983 words) - 16:40, 7 November 2013
  • WS154
    <pre>New release of WormBase WS154, Wormpep154 and Wormrna154 Fri Feb 10 12:46:08 GMT 2006 i) database.WS154.*.tar.gz - compressed data for new release
    7 KB (749 words) - 11:08, 21 December 2011
  • WS179
    New release of WormBase WS179, Wormpep179 and Wormrna179 Mon Jul 30 12:21:01 BST 2007 i) database.WS179.*.tar.gz - compressed data for new release
    8 KB (843 words) - 10:53, 21 December 2011
  • WS135
    <pre>New release of WormBase WS135, Wormpep135 and Wormrna135 Thu Nov 11 13:32:31 GMT 2004 i) database.WS135.*.tar.gz - compressed data for new release
    6 KB (689 words) - 11:19, 21 December 2011
  • WBConfCall 2011.05.19-Agenda and Minutes
    === eggNOG discussion and model change implications for CalTech - Michael === Michael also want to remove unused database connections from the models
    3 KB (486 words) - 11:14, 21 December 2011
  • WormBase-Caltech Weekly Calls October 2011
    *Yuling should contact FlyBase to make sure they're OK, once he has WormBase SVM working *SGD would like to incorporate SVM into they're database
    7 KB (1,064 words) - 19:12, 3 November 2011
  • Developer documentation
    This page contains information pertinent to employees of WormBase. ...VPuB__KmNs5tErO6VXDY/pub New Employee Orientation] -- ''Getting started at WormBase, for employees at any location. Read this first.''
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  • WS190
    <pre>New release of WormBase WS190, Wormpep190 and Wormrna190 Fri Apr 25 11:03:36 BST 2008 i) database.WS190.*.tar.gz - compressed data for new release
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  • WormBase-Caltech Weekly Calls June 2014
    === WormBase Ontology Browser (WOBr) for WS244 release === * Final data model may still need refinement?
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  • WBConfCall 2012.06.21-Agenda and Minutes
    ...cycle. Please review the file [http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?revision=1.376&root=ensembl&view=markup models.wrm] in the (e.g., http://legacy.wormbase.org/db/seq/sequence?name=F59G1.1)
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  • WS216
    New release of WormBase WS216, Wormpep216 and Wormrna216 Tue Jun 29 12:53:35 BST 2010 i) database.WS216.*.tar.gz - compressed data for new release
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  • WBConfCall 2020.07.02-Agenda and Minutes
    * New Amino Acid-based JBrowse Protein schematic (https://staging.wormbase.org/species/c_elegans/protein/CE29545#03--10) * Confirm model proposals and changes
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  • WBConfCall 2011.11.17-Agenda and Minutes
    * WormBook mirror: will move from wormbase.sanger.ac.uk to * WormBase mirror: will go offline next week Friday
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  • WormBase Model:Sequence
    [[WormBase Models]] == Model ==
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  • WormBase-Caltech Weekly Calls July 2014
    === Construct model/annotation === ...d to add "Construct" under list of "Detection methods" in the ?Interaction model
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  • Website:WormMine
    sudo groupadd wormbase sudo adduser -M intermine // will be the user connecting to the mine database
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  • WS194
    <pre>New release of WormBase WS194, Wormpep194 and Wormrna194 Tue Sep 2 10:54:51 BST 2008 i) database.WS194.*.tar.gz - compressed data for new release
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  • WS193
    <pre>New release of WormBase WS193, Wormpep193 and Wormrna193 Fri Jul 25 22:12:15 BST 2008 i) database.WS193.*.tar.gz - compressed data for new release
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  • WS207
    New release of WormBase WS207, Wormpep207 and Wormrna207 Mon Sep 28 11:47:26 BST 2009 i) database.WS207.*.tar.gz - compressed data for new release
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  • WS180
    New release of WormBase WS180, Wormpep180 and Wormrna180 Fri Aug 17 13:41:37 BST 2007 i) database.WS180.*.tar.gz - compressed data for new release
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  • WS195
    ...r><br>Release notes on the web:<br>-------------------------<br>http://www.wormbase.org/wiki/index.php/Release_Schedule<br><br>Genome sequence composition:<br> ...open your database, e.g.<br>&nbsp;&nbsp;&nbsp; type 'xace /users/yourname/wormbase' at the command prompt.<br><br>5. See the acedb website for more informatio
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  • WS169
    <pre>New release of WormBase WS169, Wormpep169 and Wormrna169 Fri Dec 22 15:09:52 GMT 2006 i) database.WS169.*.tar.gz - compressed data for new release
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  • WS170
    New release of WormBase WS170, Wormpep170 and Wormrna170 Fri Jan 19 09:31:14 GMT 2007 i) database.WS170.*.tar.gz - compressed data for new release
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  • WBConfCall 2020.02.06-Agenda and Minutes
    Is there a link from WormBase to Alaska, and an announcement about its function? == WormBase resources for non-coding RNA ==
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  • WormBase Model:Variation
    [[WormBase Models]] == Model ==
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  • WS131
    <pre>New release of WormBase WS131, Wormpep131 and Wormrna131 Tue Sep 7 15:06:49 BST 2004 i) database.WS131.*.tar.gz - compressed data for new release
    6 KB (669 words) - 11:18, 21 December 2011
  • WS107
    <pre>New release of WormBase WS107, Wormpep107 and Wormrna107 Fri Aug 8 13:44:00 BST 2003 i) database.WS107.*.tar.gz - compressed data for new release
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  • WormBase-Caltech Weekly Calls March 2015
    === GO data model change === * Worm pick holders (pencil grips) with WormBase logos; can they be printed on?
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  • WS177
    New release of WormBase WS177, Wormpep177 and Wormrna177 Fri Jun 15 15:39:40 BST 2007 i) database.WS177.*.tar.gz - compressed data for new release
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  • WS189
    New release of WormBase WS189, Wormpep189 and Wormrna189 Thu Apr 3 10:28:39 BST 2008 WS189 was built by [Paul Davis (paul.davis@wormbase.org)]
    6 KB (668 words) - 11:01, 21 December 2011
  • WS200
    New release of WormBase WS200, Wormpep200 and Wormrna200 Tue Feb 24 12:51:18 GMT 2009 i) database.WS200.*.tar.gz - compressed data for new release
    6 KB (722 words) - 16:43, 21 December 2011
  • WS289
    New release of WormBase WS288 WS288 was built by Stavros Diamantakis with the input from the WormBase Community and Team. Thank you!
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  • 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 ==
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  • WBConfCall 2013.11.07-Agenda and Minutes
    [[WS241_Models.wrm | WS241 model details]] * ?Person class - Database tag added for ORCID
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  • WS117
    <pre>New release of WormBase WS117, Wormpep117 and Wormrna117 Tue Jan 20 10:22:06 GMT 2004 i) database.WS117.*.tar.gz - compressed data for new release
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  • WS284
    New release of WormBase WS284 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES)
    17 KB (1,841 words) - 21:54, 11 May 2023
  • WS122
    <pre>New release of WormBase WS122, Wormpep122 and Wormrna122 March 26th 2004 i) database.WS122.*.tar.gz - compressed data for new release
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  • WormBase-Caltech Weekly Calls November 2012
    *JD Wong started at WormBase this week; will focus on building WormBase instance of Intermine *Once in place, we can build pre-canned queries that we can embed in WormBase pages (maybe in response to help desk inquiries)
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  • WormBase Model:Gene
    [[WormBase Models]] == Model ==
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  • WS174
    i) database.WS174.*.tar.gz - compressed data for new release ...models.wrm.WS174 - the latest database schema (also in above database files)
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  • WormBase-Caltech Weekly Calls July 2015
    * Neuronal connectivity, collaborative database with Scott Emmons and colleagues * Wen will make the model change proposal
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  • WS142
    <pre>New release of WormBase WS142, Wormpep142 and Wormrna142 Fri Apr 15 18:22:51 BST 2005 i) database.WS142.*.tar.gz - compressed data for new release
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  • WBConfCall 2013.11.21-Agenda and Minutes
    Curators checked their model proposals in this file: WS241 pre-WS241 tagged models [[http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?revision=1.396&root=ensembl&view=markup pre-WS241]]
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  • WS127
    <pre>New release of WormBase WS127, Wormpep127 and Wormrna127 Tue Jul 6 13:12:51 BST 2004 i) database.WS127.*.tar.gz - compressed data for new release
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  • Hinxton 2015.07- Meeting minutes
    ** Some species (e.g. P. pac) have few/no gene model changes, but could do with being brought up to latest models and have newes ** MP to create summary of gene model changes for each species
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  • Website:Mobile
    A Backbone.js + jQuery Mobile app for accessing the Wormbase database through its RESTful API. wormbase-mobile
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  • WormBase Model:Gene cluster
    [[WormBase Models]] == Model ==
    15 KB (1,645 words) - 18:54, 23 January 2014
  • February 15, 2011
    ...ID and WB can exchange interaction curation information via mapping of the database objects between the two groups. ...orate parts BioGRID curation for physical Interactions (Will alter WB data Model)
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  • WormBase-Caltech Weekly Calls May 2017
    * GO-CAM (Gene Ontology - Causal Activity Model(ing)) ...rds, tool could pull up all relevant annotations to help start with GO CAM model building
    8 KB (1,229 words) - 15:31, 1 June 2017
  • WS202
    New release of WormBase WS202, Wormpep202 and Wormrna202 Tue Apr 28 16:02:08 BST 2009 i) database.WS202.*.tar.gz - compressed data for new release
    6 KB (770 words) - 11:06, 21 December 2011
  • WS228
    New release of WormBase WS228 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    14 KB (1,572 words) - 10:37, 11 November 2011
  • WormBase-Caltech Weekly Calls September 2014
    ...dividual statements/sentences from literature for data presence/absence in database * What are considerations for future database migration? We should account for migration delays to curation, etc.
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  • Administration:Installing WormMine
    ...document describes how to install and configure the Intermine instance at WormBase. ...tyle="color: red">'''Previous build examples are available at: http://wiki.wormbase.org/index.php/Website:WormMine_Builds'''</span>
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  • WS223
    New release of WormBase WS223, Wormpep223 and Wormrna223 Mon Jan 24 12:12:08 GMT 2011 genomes DIR - contains a sub dir for each WormBase species with sequence, gff, and agp data
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  • WS227
    New release of WormBase WS227 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
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  • WormBase Newsletter No. 2, February 2003
    == WormBase User's Survey == ...ll have a chance to win a WormBase mug with Thomas BoulinÕs award-winning WormBase Logo.
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  • WS222
    New release of WormBase WS222, Wormpep222 and Wormrna222 Mon Dec 20 12:07:08 GMT 2010 WS222 was built by Michael Paulini (michael.paulini@wormbase.org)
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  • Design Specs: Scalability
    ...uild a robust and scalable platform for hosting the next generation of the WormBase website. [http://bitbucket.org/tharris/wormbase/issues/?component=Rearch:scalability Reported Issiues (bitbucket.org)]
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  • Feature WishList
    ''This is a running list of proposed features at WormBase'' ...human diseases. This is a benefit both to people who use C. elegans as a model system (most grants at least true to touch on the relevance of given projec
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  • WormBase Newsletter No. 3, October 2003
    == WormBase Version Freeze == ...WormBase, e. g., WS100 (http://ws100.wormbase.org) and WS110 (http://ws110.wormbase.org). These reference releases are available for perpetuity on dedicated se
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  • WormBase-Caltech Weekly Calls September 2013
    *What would WormBase look like without any manually curated data? *Interaction model changed to update genetic interaction terms
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  • WormBase-Caltech Weekly Calls April 2014
    * Testing at juancarlos.wormbase.org (from there go to Tools > Ontology Browser) ** Add a Reactome display to WormBase?
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  • WS221
    New release of WormBase WS221, Wormpep221 and Wormrna221 Tue Nov 23 12:32:16 GMT 2010 genomes DIR - contains a sub dir for each WormBase species with sequence, gff, and agp data
    17 KB (1,758 words) - 16:47, 21 December 2011
  • WS231
    New release of WormBase WS231 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    16 KB (1,820 words) - 14:15, 13 September 2012
  • WormBase-Caltech Weekly Calls April 2012
    *Common themes: data standards, how to educate users of database materials and how to use it (and think critically) **Object-oriented database
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  • WS225
    New release of WormBase WS225, Wormpep225 and Wormrna225 Tue Apr 5 11:57:03 BST 2011 genomes DIR - contains a sub dir for each WormBase species with sequence, gff, and agp data
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  • WormBase-Caltech Weekly Calls June 2012
    **Chris will add all model changes proposed for WS233 **?Interaction model "Rearrangement" tag needs an XREF and ?Rearrangement model needs an "Interactor" tag
    6 KB (983 words) - 18:02, 12 July 2012
  • WBConfCall 2012.04.19-Agenda and Minutes
    == 1. Model changes (Hinxton) == 1a) Variation model sign off
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  • WormBase-Caltech Weekly Calls February 2011
    *Should we take minutes of Caltech WormBase group meetings and send around? *WormBase-wide conference call twice per month
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  • WormBase-Caltech Weekly Calls July 2012
    *Don't need a central/unified curation system to have a central database, but may help reduce some effort/work *Arguably, common/central curation tool and database could speed up curation across different databases
    6 KB (944 words) - 16:25, 1 November 2012
  • WormBase-Caltech Weekly Calls March 2011
    *Flat file Postgres database, replaced every night? *We should check patch before we send to Todd!!! Don't want to crash database
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  • WS218
    New release of WormBase WS218, Wormpep218 and Wormrna218 Tue Aug 24 genomes DIR - contains a sub dir for each WormBase species with
    15 KB (1,756 words) - 11:21, 21 December 2011
  • WS224
    New release of WormBase WS224, Wormpep224 and Wormrna224 Fri Mar 4 14:58:13 GMT 2011 genomes DIR - contains a sub dir for each WormBase species with sequence, gff, and agp data
    15 KB (1,583 words) - 11:13, 21 December 2011
  • WS234
    New release of WormBase WS234 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    15 KB (1,653 words) - 10:13, 18 January 2013
  • Software Life Cycle: 1. Updating The Development Server
    https://docs.google.com/a/wormbase.org/document/d/1oPpj8d5gibUc-gpUZorl6ETT5baE6mp-v2bMedKauiA/edit# This document describes the process of staging a new release of WormBase on the development server.
    25 KB (3,632 words) - 03:11, 28 October 2013
  • WormBase Literature Curation Workflow
    =WormBase Curated Data Types and Curation Methods= SMID-DB - Small Molecule Identifier DataBase
    9 KB (1,174 words) - 18:30, 29 August 2012
  • WormBase-Caltech Weekly Calls March 2017
    * Karen will need to become part time at WormBase (needs to be more than half time on SBIR) * Marian Walhout lab created the WormFlux database (http://wormflux.umassmed.edu/)
    10 KB (1,527 words) - 15:32, 6 April 2017
  • WormBase-Caltech Weekly Calls April 2017
    * Need to change "Tissue Enrichment Analysis" link title under WormBase Tools menu * There's a question about how we now handle model changes going forward
    7 KB (1,010 words) - 17:08, 4 May 2017
  • WormBase-Caltech Weekly Calls June 2019
    * Andy asked about protocol pages at WormBase? ...interface with those existing resources to link to relevant protocols from WormBase (and WormBook)
    8 KB (1,121 words) - 14:01, 15 July 2019
  • WS217
    New release of WormBase WS217, Wormpep217 and Wormrna217 Wed Jul 28 09:25:17 BST 2010 i) database.WS217.*.tar.gz - compressed data for new release
    8 KB (915 words) - 11:10, 21 December 2011
  • WS220
    New release of WormBase WS220, Wormpep220 and Wormrna220 Mon Oct 25 13:22:36 BST 2010 genomes DIR - contains a sub dir for each WormBase species with sequence, gff, and agp data
    16 KB (1,762 words) - 11:10, 21 December 2011
  • WS226
    New release of WormBase WS226 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    21 KB (2,346 words) - 11:15, 21 December 2011
  • WormBase-Caltech Weekly Calls December 2012
    *Database build will happen second week of Janurary WormBase GO progress report
    9 KB (1,339 words) - 19:02, 31 January 2013
  • WBConfCall 2018.07.19-Agenda and Minutes
    ...using gene expression markers of known cell types, but there is no current database of this information. It would be great to organize this information such th ...inding site (for example, a schematic of promoter etc. on the current gene model).
    11 KB (1,649 words) - 16:10, 19 July 2018
  • WormBase-Caltech Weekly Calls October 2016
    * First draft up on WormBase development site === Expr_pattern model change ===
    8 KB (1,289 words) - 18:11, 10 November 2016
  • 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 September 2012
    **We could extend the WormBase web app to interact with SPELL data *We (EBI & OICR) spend a lot of time building ACEDB database
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  • WS235
    New release of WormBase WS235 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    15 KB (1,708 words) - 10:14, 18 January 2013
  • WBConfCall 2014.09.18-Agenda and Minutes
    * http://wiki.wormbase.org/index.php/2014_Advisory_Board_Meeting Paul will begin meeting with “ What is WormBase” and his talk will include an introduction to the following topics (not n
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  • WS232
    New release of WormBase WS232 WS232 was built by Michael Paulini [michael.paulini@wormbase.org]
    15 KB (1,729 words) - 14:15, 13 September 2012
  • 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
  • Gene Interaction/archive
    ** you can use the empty database by ssh -X citpub@spica.caltech.edu ...ibing an interactor entity or condition that does not fall into a standard WormBase category
    50 KB (5,228 words) - 15:10, 21 July 2017
  • WS219
    New release of WormBase WS219, Wormpep219 and Wormrna219 Tue Oct 5 16:04:14 BST 2010 WS219 was built by [Michael Paulini (michael.paulini@wormbase.org)]
    15 KB (1,622 words) - 11:11, 21 December 2011
  • 20141022 - Phenotype2GO Pipeline
    ...arize how the Phenotype2GO-based GO annotations will be handled for future WormBase builds and GO uploads. *It will be up to Caltech to integrate the annotations into their curation database and perform any necessary editing and QC there.
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  • 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 2019
    Title: WormBase 2019 - Data, Tools and Community Curation ...sitic worm genomic data, and guide participants on how to find data across model organisms at the Alliance of Genome Research.
    9 KB (1,364 words) - 15:39, 7 February 2019
  • WBConfCall 2014.07.03-Agenda and Minutes
    http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?revision=1.404&root=ensembl&view=markup ...ata that only has person communication as evidence. How should users cite WormBase ? How should we make it clear to users that some is published and some isn
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  • Progress Report 2011
    ='''WormBase Gene Ontology Progress Report, December 2011'''= Developer, WormBase, Caltech, Pasadena, CA.
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  • WormBase-Caltech Weekly Calls August 2012
    ***Integrated interaction model, genetic interaction ontology ***Need to update Gene expression model to accommodate Epic dataset (John Murray), 3D movies (Bill Mohler), and sin
    12 KB (1,878 words) - 15:55, 6 September 2012
  • WormBase-Caltech Weekly Calls May 2011
    Ranjana - Preplanning WormBase side meetings at IWM? *Two Wormbase Plenary talks
    9 KB (1,302 words) - 16:38, 2 June 2011
  • WormBase-Caltech Weekly Calls June 2016
    * Wen will create ticket to create wormbase.org URL * Working on mapping fosmids to latest release of WormBase
    8 KB (1,224 words) - 15:34, 21 July 2016
  • 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
  • WS229
    New release of WormBase WS229 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:
    17 KB (1,988 words) - 11:15, 21 December 2011
  • 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 October 2015
    ...eral discussion on DOI handling for micropublications and using the ?Paper model * Micropublications were displayed on ?Expr_pattern pages on WormBase/WormBook
    10 KB (1,475 words) - 16:57, 5 November 2015
  • Gene Interaction
    ...ed ?Physical_interaction model has also been consolidated into this larger model. Note that #Interaction_info and #Interaction_type have been deprecated. WBProcess ?WBProcess XREF Interaction // WormBase biological process associated with the interaction
    53 KB (6,521 words) - 20:51, 7 March 2019
  • 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
  • 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
  • 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 April 2015
    ** For list of files, see: ftp://ftp.sanger.ac.uk/pub/consortia/wormbase/STAFF/mh6/nightly_geneace/ === WormBase Ontology Browser WS248 online on Dev ===
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  • 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
  • Tasks in Progress
    **Documenting elements of WormBase workflow to ease transition for new staff and keep track of changes made **Added information and links for getting started with WormBase
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  • WormBase-Caltech Weekly Calls November 2013
    * Citace upload deadline will be 6pm Monday, November 25th (added to WormBase calendar) ...WormBase blog) about what topic we have focused on for that release of the database/website (at the time the site goes live for that release)
    10 KB (1,664 words) - 17:02, 4 December 2013
  • WormBase-Caltech Weekly Calls November 2017
    * Would be good to meet with individual labs and lab members to discuss WormBase * We should consider moving curation database to a new machine/location and/or creating a backup system
    11 KB (1,664 words) - 16:29, 7 December 2017
  • WS215
    <pre>New release of WormBase WS215, Wormpep215 and Wormrna215 Thu May 27 18:15:29 BST 2010 i) database.WS215.*.tar.gz - compressed data for new release
    19 KB (1,735 words) - 11:07, 21 December 2011
  • WBConfCall 2020.03.05-Agenda and Minutes
    * [https://github.com/WormBase/website/issues/7581 CGC bad WB link URL]; can this be closed? * [https://github.com/WormBase/website/issues/7579 Maureen Barr's question about protein coding genes with
    5 KB (857 words) - 14:36, 9 March 2020
  • Updating WormBase
    WormBase is updated with each new build of the database released from Sanger. The live site and the development sites are updated o ...g or troubleshooting. This is especially true during cycles where the data model changes significantly.
    34 KB (5,450 words) - 18:24, 17 August 2010
  • WormBase-Caltech Weekly Calls January 2013
    *We should make an announcement on the main WormBase page that WormMart will remain at WS220 and Intermine will replace it Brugia database
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  • 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
  • User Guide for Curators
    ...sent to UniProt GOA's Protein2GO tool as well as saved in a local curation database. *If you need to change an annotation, you first need to delete it from the database by checking the delete button at the right end of the annotation line and t
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  • 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 ...e is identified as the RNAi target gene regardless of which release of the database you are currently working in.
    47 KB (7,989 words) - 23:40, 1 September 2015
  • WormBase-Caltech Weekly Calls February 2013
    *End-of-build summary for curators (with more database technical numbers) separate from the Release Notes for public (with more bi *How to use annotation extensions for LEGO model?
    8 KB (1,161 words) - 16:34, 7 March 2013
  • Gene Ontology
    ===WormBase Uploads=== ...produced weekly to the WormBase .ace file for upload: [[UniProtKB gpad to WormBase .ace]]
    30 KB (3,904 words) - 18:45, 13 May 2020
  • FAQs
    ...ww.wormbase.org/about/Frequently_asked_questions FAQ pages] on the new www.wormbase.org site. === How should I cite WormBase? ===
    67 KB (10,954 words) - 09:22, 19 February 2013
  • COMMENTARY
    ...y </nowiki>''C. elegans'' gene in the published literature can be found in WormBase, by reference either to genes or to cell or tissue types. There are results ...elopers group actively invites suggestions for improvement from users, and WormBase's source code is freely available for local installation and improvement.
    30 KB (4,765 words) - 20:03, 11 August 2010
  • 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-Caltech Weekly Calls 2023
    * Trained a small GPT model with C. elegans literature. Reporting some results. ** Current data model at the ABC has negated as a Boolean (true/false).
    36 KB (4,994 words) - 17:27, 14 February 2024
  • WormBase-Caltech Weekly Calls 2022
    [[WormBase-Caltech_Weekly_Calls_January_2022|January]] [[WormBase-Caltech_Weekly_Calls_February_2022|February]]
    10 KB (1,547 words) - 21:31, 2 January 2024
  • Molecule
    ==Model== ===Original model===
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  • WormBase-Caltech Weekly Calls June 2018
    * Issue for WBPaper00048704: https://wormbase.org/resources/paper/WBPaper00048704#0--10 * First author is "Li, C" as in PubMed (correct name) in WormBase as "Chun, L"
    8 KB (1,189 words) - 14:10, 5 July 2018
  • WS244 Models.wrm
    == Model changes for WS244 == * This cycle we see 5 model changes in 4 classes:
    235 KB (23,325 words) - 10:33, 3 July 2014
  • Pictures
    ==Picture Data Model== Article_URL UNIQUE ?Database UNIQUE ?Database_field UNIQUE ?Accession_number
    120 KB (19,719 words) - 16:44, 20 October 2023
  • ISB2014 Session4 Microbial Informatics
    Karen Yook/wormbase- Caltech/@wbperson712 ...sequences, to infer the presence of metabolic pathways, to create and edit database entries, to generate metabolic models, and to publish the resulting databas
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  • UserGuide:Reivsed Nomenclature
    .../p><h2>Genomes, assemblies, clones and contigs</h2><p>Reference genomes in WormBase are given version names, for example <i>C. elegans</i> has the version name ...<b>AscSuum_1.0</b> and <b>ASU_2.0</b></p><p>The genomes of most species in WormBase are incompletely assembled, being left as various sizes of contig. Only <i>
    56 KB (9,520 words) - 11:51, 21 October 2015
  • Concise Descriptions
    http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?root=ensembl&view=log *mid-1 - can't find in database
    47 KB (6,852 words) - 04:27, 8 December 2020
  • UserGuide:Revised Nomenclature
    .../p><h2>Genomes, assemblies, clones and contigs</h2><p>Reference genomes in WormBase are given version names, for example <i>C. elegans</i> has the version name ...<b>AscSuum_1.0</b> and <b>ASU_2.0</b></p><p>The genomes of most species in WormBase are incompletely assembled, being left as various sizes of contig. Only <i>
    56 KB (9,514 words) - 09:48, 23 October 2015
  • ISB2014 Stein
    Karen Yook/WormBase-Caltech/@wbperson712 financial reporting: business model before (subjective) - now quants (big data trends)
    37 KB (5,533 words) - 19:17, 11 April 2014
  • ISB2014 Session5 Data Integration and Sharing
    Karen Yook/WormBase-Caltech/@wbperson712 financial reporting: business model before (subjective) - now quants (big data trends)
    37 KB (5,533 words) - 19:17, 11 April 2014
  • FP curator comments for St.Louis and Sanger structure correction data type
    [[http://www.wormbase.org/wiki/index.php?title=How_to_FirstPass&action=submit back]] ...nment search tool. J. Mol. Biol. 215:403-10. Query= AJ131742 (590 letters) Database: wormpub/wormpep_current 19,730 sequences; 8,603,921 total letters. Searchi
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  • Searching WormBase for Information About C. elegans (Wiley)
    ...l traits such as gene expression patterns and neuronal connectivity. Also, WormBase contains sequence and gene structures of C. briggsae and C. remanei, two cl ...vailable in September, 2005 (WS147 release; BioPerl/Generic Model Organism Database software).
    103 KB (16,375 words) - 23:39, 30 November 2010
  • Expression Pattern
    Current model (WS280) DB_info ?Database ?Database_field Text
    104 KB (15,303 words) - 19:39, 11 May 2023
  • Person
    ...u don't use it, is it in the emails you send out or in the submit forms in WormBase ? -- J answer Please keep form, must be the one linking to old papers asso http://www.wormbase.org/db/misc/person?name=WBPerson1823;class=Person
    119 KB (18,888 words) - 00:05, 2 May 2014
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