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- [[WormBase Models]] == Model ==7 KB (712 words) - 10:40, 4 October 2010
- [[WormBase Models]] == Model ==842 bytes (93 words) - 12:59, 4 October 2010
- [[WormBase Models]] == Model ==648 bytes (65 words) - 12:56, 4 October 2010
- [[WormBase Models]] == Model ==15 KB (1,645 words) - 18:54, 23 January 2014
- [[WormBase Models]] == Model ==5 KB (514 words) - 21:15, 7 December 2010
Page text matches
- ...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
File:QB circled new.png ...view demonstration with circled attributes to show "WormBase Gene ID" and "Gene Name" and to open the "Transcripts" section(450 × 376 (53 KB)) - 19:52, 24 June 2013- == WS249 model == === ?Interaction model (Chris) ===1 KB (198 words) - 17:01, 16 April 2015
- [[WormBase Models]] Unused class in wormbase and it appears that the acedb source code doesn't look for this specific cl816 bytes (100 words) - 15:47, 4 October 2010
- [[WormBase Models]] ?Gene700 bytes (98 words) - 09:44, 4 October 2010
- [[WormBase Models]] == Model ==842 bytes (93 words) - 12:59, 4 October 2010
- [[WormBase Models]] == Model ==2 KB (163 words) - 15:52, 4 October 2010
- [[WormBase Models]] == Model ==244 bytes (29 words) - 11:07, 10 August 2010
- #[[Alliance - migrating WormBase papers to Alliance ABC]] #[[Getting Meeting Abstracts into WormBase]]1 KB (130 words) - 21:21, 15 March 2021
- [[WormBase Models]] == Model ==3 KB (275 words) - 01:07, 6 February 2014
- [[WormBase Models]] == Model ==2 KB (208 words) - 14:36, 4 October 2010
- == 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 Models]] == Model ==2 KB (133 words) - 09:56, 10 August 2010
- [[WormBase Models]] == Model ==1 KB (119 words) - 16:43, 11 April 2013
- ==C. elegans as a model system to study disease and disease genes== ...s is used to model the biology of a disease and/or the orthologous elegans gene function is studied in detail. We have developed a method to identify and f5 KB (782 words) - 20:56, 8 January 2020
- == Data Model == ...l|About the WormBase data model]] - ''how data is stored and structured at WormBase''2 KB (264 words) - 01:36, 1 April 2022
- [[WormBase Models]] == Model ==309 bytes (39 words) - 09:49, 10 August 2010
- [[WormBase Models]] == Model ==1 KB (119 words) - 10:41, 10 August 2010
- == Model Change Sign Off == [https://github.com/WormBase/website/issues/241 issue 241] "Nucl. Aligner Tool bug."2 KB (294 words) - 16:14, 16 August 2012
- [[WormBase Models]] == Model ==1 KB (125 words) - 15:01, 4 October 2012
- === Linkouts to AGR from WB gene & disease pages === * Yeast gene page: https://qa.yeastgenome.org/locus/S0000003642 KB (250 words) - 16:12, 19 October 2017
- [[WormBase Models]] == Model ==2 KB (193 words) - 14:28, 4 October 2010
- [[WormBase Models]] Updated model and unused tags for WS245 elegans data from pre-merged BUILD/elegans databa4 KB (394 words) - 08:39, 16 September 2014
- == Model Changes == Gene class3 KB (306 words) - 10:00, 26 October 2011
- [[WormBase Models]] == Model ==3 KB (318 words) - 00:53, 7 December 2010
- * [https://github.com/WormBase/website/issues/6841 TICKET #6841 I was looking at the modENCODE ChIP-S * [https://github.com/WormBase/website/issues/6831 TICKET #6831 Looking to buy clones of Syphacia mur2 KB (292 words) - 17:44, 17 January 2019
- [[WormBase Models]] == Model ==5 KB (352 words) - 17:20, 25 September 2015
- This gene encodes a protein containing an F-box, a motif predicted to mediate The protein product of this gene is predicted to contain a glutamine/asparagine2 KB (259 words) - 19:11, 19 February 2016
- As the modENCODE DCC is overwhelmed with other work, she has proposed that WormBase make the data available to the public. Our position with providing primary data to users has always been that WormBase isn't a primary repository of data.5 KB (796 words) - 21:05, 10 March 2014
- [[WormBase Models]] == Model ==3 KB (312 words) - 15:14, 15 July 2010
- * 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.txt4 KB (583 words) - 20:22, 29 July 2011
- [[WormBase Models]] == Model ==648 bytes (65 words) - 12:56, 4 October 2010
- *stub of person Alliance model already exists made by Adam http://dev.alliancegenome.org:11223/redoc#tag/P *Daniela and Karen invite PomBase to start harmonizing a person model, will send all Alliance an invite2 KB (325 words) - 15:24, 7 October 2021
- [[WormBase Models]] == Model ==1 KB (159 words) - 09:16, 5 October 2010
- Protein model Uncaptured gene & protein synonyms1,008 bytes (159 words) - 19:01, 15 December 2011
- Protein model Uncaptured gene & protein synonyms1,008 bytes (159 words) - 19:13, 15 December 2011
- [[WormBase Models]] == Model ==1 KB (146 words) - 08:38, 5 October 2010
- We will need to create a tab-delimited gpi file with each WormBase release. !Project_name: WormBase5 KB (720 words) - 20:46, 10 October 2016
- [[WormBase Models]] == Model ==1 KB (139 words) - 09:51, 10 August 2010
- == Model == ...// Ribo-zero treated to reduce the amount of ribosome gene transcripts3 KB (252 words) - 16:46, 9 January 2014
- [[WormBase Models]] == Model ==3 KB (223 words) - 09:22, 10 August 2010
- 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
- New release of WormBase WS183, Wormpep183 and Wormrna183 Tue Oct 16 16:18:34 BST 2007 ...map_positions.WS183.gz - Interpolated map positions for each coding/RNA gene7 KB (800 words) - 10:01, 8 November 2007
- ==Importing Undiagnosed Diseases Network (UDN) worm data into WormBase== *Initially thought it would be textual data that would go into disease model curation, but really involves other data types such as Variation, Strain, P3 KB (400 words) - 16:03, 15 March 2018
- [[WormBase Models]] == Model ==2 KB (305 words) - 08:49, 5 October 2010
- [[WormBase Models]] == Model ==5 KB (514 words) - 21:15, 7 December 2010
- [[WormBase Models]] == Model ==4 KB (497 words) - 22:42, 6 December 2010
- New release of WormBase WS185, Wormpep185 and Wormrna185 Fri Nov 30 17:11:38 GMT 2007 ...map_positions.WS185.gz - Interpolated map positions for each coding/RNA gene6 KB (680 words) - 07:37, 11 January 2008
- ...is the "Working Groups" page. Working Groups are intended to be groups of WormBase staff focused on particular issues, whether they be WormBase bugs, data architecture, enhancements/proposals, etc.2 KB (306 words) - 15:01, 14 January 2016
- New release of WormBase WS186, Wormpep186 and Wormrna186 Fri Dec 21 08:57:59 GMT 2007 ...map_positions.WS186.gz - Interpolated map positions for each coding/RNA gene6 KB (683 words) - 05:51, 3 April 2008
- *Community annotation form needs to be very simple (e.g. gene name and empty box only) Gene file from Hinxton to populate Gene Tables4 KB (650 words) - 17:08, 1 September 2011
- ===Testing data for WS278 model changes=== **Note that for gene-paper associations, we try to only associate genes that are studied in some3 KB (490 words) - 17:22, 18 June 2020
- = Proposed Model changes = Link to the model changes proposed for WS236 [[WS236_Models.wrm]]5 KB (752 words) - 18:55, 6 December 2012
- [[WormBase Models]] == Model ==4 KB (350 words) - 09:32, 17 June 2013
- 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
- ;item 3 - Interaction Model (slides 4-5, attached .ppt in documents distributed section) #Chris and Gary will try to map WormBase interaction types to BioGRID interaction types and figure out what the diff3 KB (475 words) - 22:50, 17 December 2010
- ...rent type (such as the DNA sequence of the gene, or the cells in which the gene is active). One can also do searches for complex data sets. ...n of WormBase available in September, 2005 (WS147 release; BioPerl/Generic Model Organism Database software).2 KB (365 words) - 00:06, 1 December 2010
- 1. Model change --ticket #588 David Baillie from Vancouver group would like wormbase to fix the BC strains (gfp expression strains) display, so that users won't1 KB (182 words) - 10:02, 2 November 2012
- [[WormBase Models]] == Model ==1 KB (120 words) - 09:24, 10 August 2010
- == Model changes for WS246 == * This cycle we see 6 model changes effecting 7 classes:3 KB (413 words) - 15:51, 18 September 2014
- ...regional and topical meetings held at various locations around 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
- ew release of WormBase WS184, Wormpep184 and Wormrna184 Thu Nov 8 12:09:34 GMT 2007 ...map_positions.WS184.gz - Interpolated map positions for each coding/RNA gene7 KB (831 words) - 07:36, 11 January 2008
- [[WormBase Models]] == Model ==2 KB (183 words) - 13:25, 4 October 2010
- ...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 them5 KB (807 words) - 18:27, 4 September 2014
- = 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 Models]] == Model ==2 KB (177 words) - 22:50, 6 December 2010
- * Describe how to develop for the WormBase implementation **document fetching the WormBase code3 KB (365 words) - 19:14, 10 August 2010
- [[WormBase Models]] == Model ==2 KB (152 words) - 14:44, 4 October 2010
- * [https://github.com/WormBase/website/issues/8008 egl-1 automated gene description] * [https://github.com/WormBase/website/issues/8006 We have identified from RNAseq....]2 KB (239 words) - 17:32, 3 December 2020
- [[WormBase Models]] ==Updated model for WS245==13 KB (1,341 words) - 20:12, 22 September 2015
- <pre>New release of WormBase WS146, Wormpep146 and Wormrna146 Thu Jul 28 14:01:21 BST 2005 ...map_positions.WS146.gz - Interpolated map positions for each coding/RNA gene6 KB (670 words) - 11:09, 21 December 2011
- === Datomic model for external links === * Hinxton will work on simplifying the model3 KB (493 words) - 16:08, 16 March 2017
- === * Transposon gene reactivation - Paul === ==== Poor nomenclature in ?Gene history and Event ====8 KB (1,073 words) - 15:31, 14 December 2012
- ...e here] for an archive of outdated/obsolete information about the WormBase gene association file. == Gene Association File (GAF) format ==12 KB (1,718 words) - 17:45, 5 February 2021
- * We should ask users what they want: e.g. Is an Ascaris suum gene ortholog in C. elegans essential? ** Can try demo version with any S. pombe or S. cerevisiae gene names/ids4 KB (622 words) - 16:47, 6 August 2014
- *BioGRID, Gene Orienteer, Interolog database, etc. *Gene Orienteer5 KB (847 words) - 17:49, 1 March 2012
- WormBase staff can find this document in the "Documentation" directory and edit it t = About Groups at WormBase =5 KB (757 words) - 01:45, 2 June 2014
- * There are papers in the WormBase collection that are used as paper evidence for some concise descriptions ==== LEGO (Logical Extensions of Gene Ontology) ====6 KB (823 words) - 19:38, 2 January 2014
- ...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 Subcommit5 KB (646 words) - 17:11, 25 November 2020
- <pre>New release of WormBase WS198, Wormpep198 and Wormrna198 Thu Dec 18 19:31:36 GMT 2008 ...map_positions.WS198.gz - Interpolated map positions for each coding/RNA gene6 KB (692 words) - 16:51, 21 December 2011
- * integrated search for their gene and protein under their strain (not mixed up with the default strain) - Had conversation with GO people about gene model graph, will work on this visualization after WS252 development3 KB (478 words) - 15:41, 23 February 2016
- * uncharacterized eukaryotic protein-coding gene with an intron ** https://github.com/WormBase/website/issues/78293 KB (440 words) - 08:42, 3 September 2020
- [[WormBase Models]] == Model ==3 KB (265 words) - 08:51, 5 October 2010
- [[WormBase Models]] == Model ==5 KB (471 words) - 16:07, 4 October 2010
- [[WormBase Models]] == Model ==7 KB (712 words) - 10:40, 4 October 2010
- The Categories would be gene-specific and we will supply information for: New pipeline proposal is to retrieve information from WormBase ftp site, which will be updated with each release.4 KB (556 words) - 12:45, 21 May 2019
- <pre>New release of WormBase WS192, Wormpep192 and Wormrna192 Tue Jun 24 11:23:32 BST 2008 ...map_positions.WS192.gz - Interpolated map positions for each coding/RNA gene6 KB (763 words) - 10:43, 21 December 2011
- === WormBase Ontology Browser (WOBr) for WS244 release === * May be migrating to GPAD/GPI [Gene Product Annotation Data / Gene Product Information] format in future6 KB (801 words) - 17:29, 2 July 2014
- **** java -cp wb-names-export.jar clojure.main -m wormbase.names.export gene genes.csv ...arriving at many: Using WormBase and the Alliance of Genome Resources for gene data. (10 mins + 5 mins for questions)** Talk 2: What tool do I use? Matchi7 KB (1,113 words) - 18:19, 6 April 2023
- * ?Construct model === ?Construct model ===8 KB (1,218 words) - 17:46, 2 April 2014
- ...s are being dealt with or closed, except github ticket [https://github.com/WormBase/website/issues/8156| #8156] * https://github.com/WormBase/website/issues/8156 - - needs a reply from textpresso group -Valerio will t4 KB (709 words) - 13:27, 5 April 2021
- 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]]6 KB (909 words) - 21:56, 21 November 2013
- This protocol describes how to BLAST a sequence against the sequences in WormBase. Further discusion of the BLAST algorithm can be found in ''UNITS 3.3, 3.4, ...e.org/wiki/index.php/Image:Fig_1_8_01.png). This will lead to http://blast.wormbase.org/db/searches/blat. This is the method of choice for searching the ''C. e3 KB (401 words) - 20:02, 11 August 2010
- ...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
- === Gene association file formats on FTP === ...current production release ONTOLOGY directory: ftp://ftp.wormbase.org/pub/wormbase/releases/current-production-release/ONTOLOGY/6 KB (861 words) - 19:23, 5 November 2020
- New release of WormBase WS204, Wormpep204 and Wormrna204 Fri Jun 26 20:17:06 BST 2009 ...map_positions.WS204.gz - Interpolated map positions for each coding/RNA gene6 KB (648 words) - 16:16, 21 December 2011
- Gene ID mapping problems (as discussed in site-wide call) *Does CIT need to worry about consistency of gene IDs over database builds?4 KB (612 words) - 17:13, 1 December 2011
- [[WormBase Models]] == Old Model ==12 KB (1,431 words) - 19:06, 20 March 2012
- New release of WormBase WS187, Wormpep187 and Wormrna187 Fri Jan 25 20:22:16 GMT 2008 ...map_positions.WS187.gz - Interpolated map positions for each coding/RNA gene6 KB (647 words) - 16:43, 21 December 2011
- * 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 curation3 KB (529 words) - 18:26, 16 July 2020
