Search results
From WormBaseWiki
Jump to navigationJump to searchCreate the page "WormBase Model:Genome Sequence" on this wiki! See also the search results found.
- == 1. Life_stage model change == Life_stage model change proposal:1 KB (205 words) - 16:55, 17 May 2012
- 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, ...earching the ''C. elegans'' genome with a non-worm protein or nucleic acid sequence.3 KB (401 words) - 20:02, 11 August 2010
- == Genome Details == 6 Oct 2010: The latest changes to the assembly are due to be added to WormBase in release WS221.3 KB (437 words) - 16:02, 15 December 2011
- New release of WormBase WS185, Wormpep185 and Wormrna185 Fri Nov 30 17:11:38 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (680 words) - 07:37, 11 January 2008
- ...ass=Paper WBPaper00031139]). The P pacificus laboratory strain [http://www.wormbase.org/db/gene/strain?name=PS312;class=Strain PS312], used for genomic sequenc == Genome Details ==4 KB (458 words) - 16:08, 15 December 2011
- ...e) can be directed to related objects of a different type (such as the DNA sequence of the gene, or the cells in which the gene is active). One can also do sea ...n of WormBase available in September, 2005 (WS147 release; BioPerl/Generic Model Organism Database software).2 KB (365 words) - 00:06, 1 December 2010
- ...pt from "Sequence and genetic map of Meloidogyne hapla: A compact nematode genome for plant parasitism.", Opperman et al. ...th a 54 Mbp genome, ''M. hapla'' represents not only the smallest nematode genome yet completed, but also the smallest metazoan.3 KB (462 words) - 16:11, 15 December 2011
- [[WormBase Models]] == Model ==3 KB (312 words) - 15:14, 15 July 2010
- New release of WormBase WS186, Wormpep186 and Wormrna186 Fri Dec 21 08:57:59 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (683 words) - 05:51, 3 April 2008
- New release of WormBase WS183, Wormpep183 and Wormrna183 Tue Oct 16 16:18:34 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (800 words) - 10:01, 8 November 2007
- 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
- == The C. elegans genome is complete! == ...last month featured a complete genome with no gaps remaining in the genome sequence.4 KB (621 words) - 15:38, 24 September 2007
- == 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
- New release of WormBase WS216, Wormpep216 and Wormrna216 Tue Jun 29 12:53:35 BST 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (818 words) - 11:10, 21 December 2011
- ew release of WormBase WS184, Wormpep184 and Wormrna184 Thu Nov 8 12:09:34 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (831 words) - 07:36, 11 January 2008
- <pre>New release of WormBase WS147, Wormpep147 and Wormrna147 Thu Aug 18 16:59:45 BST 2005 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (815 words) - 11:09, 21 December 2011
- ...-<br>http://www.wormbase.org/wiki/index.php/Release_Schedule<br><br>Genome sequence composition:<br>----------------------------<br><br>   ...open your database, e.g.<br> type 'xace /users/yourname/wormbase' at the command prompt.<br><br>5. See the acedb website for more informatio11 KB (1,614 words) - 16:52, 21 December 2011
- == 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 se10 KB (1,509 words) - 15:40, 24 September 2007
- New release of WormBase WS204, Wormpep204 and Wormrna204 Fri Jun 26 20:17:06 BST 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (648 words) - 16:16, 21 December 2011
- 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
- New release of WormBase WS210, Wormpep210 and Wormrna210 Tue Dec 22 12:35:31 GMT 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (721 words) - 16:46, 21 December 2011
- *http://wiki.wormbase.org/index.php/WBConfCall_2014.07.03-Agenda_and_Minutes#List_of_Existing_WB_ *http://wiki.wormbase.org/index.php/WBConfCall_2014.06.05-Agenda_and_Minutes#nurf-1_Gene_structur3 KB (464 words) - 09:09, 18 July 2014
- New release of WormBase WS201, Wormpep201 and Wormrna201 Wed Mar 25 15:30:27 GMT 2009 ...tar.gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (665 words) - 16:42, 21 December 2011
- <nowiki>New release of WormBase WS171, Wormpep171 and Wormrna171 Thu Feb 8 15:28:27 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (652 words) - 10:55, 21 December 2011
- <pre>New release of WormBase WS197, Wormpep197 and Wormrna197 Wed Nov 26 19:40:37 GMT 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (672 words) - 16:43, 21 December 2011
- <pre>New release of WormBase WS142, Wormpep142 and Wormrna142 Fri Apr 15 18:22:51 BST 2005 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (720 words) - 11:09, 21 December 2011
- <pre>New release of WormBase WS199, Wormpep199 and Wormrna199 Tue Feb 3 12:09:54 GMT 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome vii) confirmed_genes.WS199.gz - DNA sequences of all genes confirmed b6 KB (661 words) - 16:51, 21 December 2011
- New release of WormBase WS205, Wormpep205 and Wormrna205 Wed Jul 22 10:29:27 BST 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (711 words) - 16:31, 21 December 2011
- <pre>New release of WormBase WS146, Wormpep146 and Wormrna146 Thu Jul 28 14:01:21 BST 2005 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (670 words) - 11:09, 21 December 2011
- <pre>New release of WormBase WS194, Wormpep194 and Wormrna194 Tue Sep 2 10:54:51 BST 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (936 words) - 16:48, 21 December 2011
- New release of WormBase WS181, Wormpep181 and Wormrna181 Fri Sep 7 11:40:20 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (885 words) - 16:47, 21 December 2011
- New release of WormBase WS203, Wormpep203 and Wormrna203 Thu May 28 13:24:17 BST 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (662 words) - 16:50, 21 December 2011
- <pre>New release of WormBase WS196, Wormpep196 and Wormrna196 Fri Oct 31 16:00:42 GMT 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (748 words) - 16:41, 21 December 2011
- New release of WormBase WS177, Wormpep177 and Wormrna177 Fri Jun 15 15:39:40 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome9 KB (819 words) - 10:53, 21 December 2011
- ...ving model nematode ''Caenorhabditis elegans''. This makes it an important model of parasitic nematode biology that is commonly used for experimental studie == Genome Details ==3 KB (493 words) - 16:03, 15 December 2011
- New release of WormBase WS173, Wormpep173 and Wormrna173 Fri Mar 23 18:22:22 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (639 words) - 10:55, 21 December 2011
- New release of WormBase WS187, Wormpep187 and Wormrna187 Fri Jan 25 20:22:16 GMT 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (647 words) - 16:43, 21 December 2011
- ...at the end of each row of the orthologous protein entry, for each block of sequence shown. *Issue #8925: Long read transcript data for the S. ratti genome.2 KB (348 words) - 17:52, 2 February 2023
- New release of WormBase WS209, Wormpep209 and Wormrna209 Fri Nov 27 11:57:36 GMT 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (687 words) - 16:50, 21 December 2011
- <pre>New release of WormBase WS198, Wormpep198 and Wormrna198 Thu Dec 18 19:31:36 GMT 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (692 words) - 16:51, 21 December 2011
- New release of WormBase WS208, Wormpep208 and Wormrna208 Tue Oct 27 13:31:22 GMT 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome5 KB (581 words) - 16:50, 21 December 2011
- <pre>New release of WormBase WS212, Wormpep212 and Wormrna212 Mon Mar 1 11:51:04 GMT 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome5 KB (582 words) - 11:16, 21 December 2011
- New release of WormBase WS175, Wormpep175 and Wormrna175 Fri May 4 16:29:43 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (680 words) - 10:54, 21 December 2011
- new release of WormBase WS176, Wormpep176 and Wormrna176 Mon May 21 11:58:06 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (783 words) - 10:46, 21 December 2011
- New release of WormBase WS213, Wormpep213 and Wormrna213 Tue Mar 23 16:36:18 GMT 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (764 words) - 16:45, 21 December 2011
- New release of WormBase WS182, Wormpep182 and Wormrna182 Thu Sep 27 11:59:39 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (716 words) - 16:48, 21 December 2011
- New release of WormBase WS178, Wormpep178 and Wormrna178 Wed Jul 4 12:56:45 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (762 words) - 10:53, 21 December 2011
- <pre>New release of WormBase WS193, Wormpep193 and Wormrna193 Fri Jul 25 22:12:15 BST 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (944 words) - 16:52, 21 December 2011
- New release of WormBase WS207, Wormpep207 and Wormrna207 Mon Sep 28 11:47:26 BST 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (675 words) - 16:42, 21 December 2011
- <pre>New release of WormBase WS192, Wormpep192 and Wormrna192 Tue Jun 24 11:23:32 BST 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (763 words) - 10:43, 21 December 2011
- New release of WormBase WS200, Wormpep200 and Wormrna200 Tue Feb 24 12:51:18 GMT 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (722 words) - 16:43, 21 December 2011
- <nowiki>New release of WormBase WS172, Wormpep172 and Wormrna172 Fri Mar 2 16:35:57 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (783 words) - 10:55, 21 December 2011
- New release of WormBase WS179, Wormpep179 and Wormrna179 Mon Jul 30 12:21:01 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (843 words) - 10:53, 21 December 2011
- <pre>New release of WormBase WS211, Wormpep211 and Wormrna211 Fri Jan 29 13:26:05 GMT 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (766 words) - 16:38, 21 December 2011
- New release of WormBase WS214, Wormpep214 and Wormrna214 Tue Apr 27 15:37:39 BST 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (709 words) - 16:49, 21 December 2011
- New release of WormBase WS180, Wormpep180 and Wormrna180 Fri Aug 17 13:41:37 BST 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (771 words) - 10:52, 21 December 2011
- == WormBase User's Survey == ...ll have a chance to win a WormBase mug with Thomas BoulinÕs award-winning WormBase Logo.7 KB (1,180 words) - 11:00, 21 December 2011
- <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
- New release of WormBase WS206, Wormpep206 and Wormrna206 Fri Aug 28 13:06:57 BST 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (796 words) - 16:46, 21 December 2011
- <pre>New release of WormBase WS191, Wormpep191 and Wormrna191 Mon Jun 2 09:50:52 BST 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (756 words) - 16:53, 21 December 2011
- 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 Ontology Browser (WOBr) for WS244 release === * Final data model may still need refinement?6 KB (801 words) - 17:29, 2 July 2014
- <pre>New release of WormBase WS169, Wormpep169 and Wormrna169 Fri Dec 22 15:09:52 GMT 2006 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (787 words) - 10:56, 21 December 2011
- ....gz - latest WormRNA release containing non-coding RNA's in the genome http://www.wormbase.org/wiki/index.php/Release_notes8 KB (938 words) - 10:54, 21 December 2011
- <pre>New release of WormBase WS112, Wormpep112 and Wormrna112 Fri Oct 17 18:38:57 BST 2003 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (735 words) - 11:17, 21 December 2011
- <pre>New release of WormBase WS190, Wormpep190 and Wormrna190 Fri Apr 25 11:03:36 BST 2008 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (913 words) - 16:46, 21 December 2011
- New release of WormBase WS202, Wormpep202 and Wormrna202 Tue Apr 28 16:02:08 BST 2009 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (770 words) - 11:06, 21 December 2011
- <pre>New release of WormBase WS154, Wormpep154 and Wormrna154 Fri Feb 10 12:46:08 GMT 2006 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (749 words) - 11:08, 21 December 2011
- <pre>New release of WormBase WS122, Wormpep122 and Wormrna122 March 26th 2004 ...- latest WormRNA release containing non-coding RNA's in the genome6 KB (721 words) - 11:18, 21 December 2011
- <pre>New release of WormBase WS131, Wormpep131 and Wormrna131 Tue Sep 7 15:06:49 BST 2004 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (669 words) - 11:18, 21 December 2011
- <pre>New release of WormBase WS138, Wormpep138 and Wormrna138 Thu Jan 20 11:55:33 GMT 2005 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (740 words) - 11:19, 21 December 2011
- New release of WormBase WS170, Wormpep170 and Wormrna170 Fri Jan 19 09:31:14 GMT 2007 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (820 words) - 10:51, 21 December 2011
- <pre>New release of WormBase WS107, Wormpep107 and Wormrna107 Fri Aug 8 13:44:00 BST 2003 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (659 words) - 11:17, 21 December 2011
- <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
- New release of WormBase WS160, Wormpep160 and Wormrna160 Thu Jun 15 16:29:46 BST 2006 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (706 words) - 10:50, 21 December 2011
- <pre>New release of WormBase WS117, Wormpep117 and Wormrna117 Tue Jan 20 10:22:06 GMT 2004 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (695 words) - 11:17, 21 December 2011
- <pre>New release of WormBase WS135, Wormpep135 and Wormrna135 Thu Nov 11 13:32:31 GMT 2004 ....gz - latest WormRNA release containing non-coding RNA's in the genome6 KB (689 words) - 11:19, 21 December 2011
- WormBase Site-Wide Conference Call Meeting Minutes *New tracks will be on WormBase4 KB (609 words) - 20:57, 3 November 2011
- ...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
- <pre>New release of WormBase WS127, Wormpep127 and Wormrna127 Tue Jul 6 13:12:51 BST 2004 ....gz - latest WormRNA release containing non-coding RNA's in the genome7 KB (872 words) - 11:18, 21 December 2011
- EPIC data into WormBase *Need to modify model and display for data7 KB (1,070 words) - 17:47, 1 March 2012
- 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
- 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 data16 KB (1,674 words) - 11:38, 20 April 2011
- 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 data17 KB (1,758 words) - 16:47, 21 December 2011
- ''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 projec6 KB (842 words) - 17:01, 21 October 2011
- 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)15 KB (1,647 words) - 10:06, 22 December 2010
- 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
- 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 data15 KB (1,583 words) - 11:13, 21 December 2011
- New release of WormBase WS288 WS288 was built by Stavros Diamantakis with the input from the WormBase Community and Team. Thank you!16 KB (1,733 words) - 21:55, 11 May 2023
- = Proposed Model changes = Link to the model changes proposed for WS236 [[WS236_Models.wrm]]5 KB (752 words) - 18:55, 6 December 2012
- 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 data15 KB (1,610 words) - 11:20, 21 December 2011
- ** model change to put topics in hierarchical structure. http://www.wormbase.org/tools/wormmine/template.do?name=Anatomy_LS_Genes&scope=all10 KB (1,485 words) - 18:08, 5 March 2014
- New release of WormBase WS227 species/ DIR - contains a sub dir for each WormBase species (G_SPECIES) with the following files:15 KB (1,738 words) - 11:20, 21 December 2011
- 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
- New release of WormBase WS218, Wormpep218 and Wormrna218 Tue Aug 24 genomes DIR - contains a sub dir for each WormBase species with15 KB (1,756 words) - 11:21, 21 December 2011
- 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 Models]] == Model ==7 KB (712 words) - 10:40, 4 October 2010
- =WormBase Curated Data Types and Curation Methods= HMM - Hidden Markov Model9 KB (1,174 words) - 18:30, 29 August 2012
- 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
- 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 Models]] == Model ==10 KB (1,176 words) - 22:24, 18 March 2014
- model? It seems pretty redundant with the Paper information and I'm not David Bird from the M. hapla genome group has asked "We also have4 KB (599 words) - 00:25, 4 May 2012
- * [http://www.genome.gov/27545578 Peter Good] *** ParaSite and integration with WormBase central.3 KB (438 words) - 07:19, 6 October 2014
- New release of WormBase WS217, Wormpep217 and Wormrna217 Wed Jul 28 09:25:17 BST 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome8 KB (915 words) - 11:10, 21 December 2011
- 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 data16 KB (1,762 words) - 11:10, 21 December 2011
- 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
- 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
- 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.''12 KB (1,638 words) - 18:25, 18 June 2014
- 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
- 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
- **** java -cp wb-names-export.jar clojure.main -m wormbase.names.export gene genes.csv ...Starting with one and arriving at many: Using WormBase and the Alliance of Genome Resources for gene data. (10 mins + 5 mins for questions)** Talk 2: What to7 KB (1,113 words) - 18:19, 6 April 2023
- 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
- <pre>New release of WormBase WS215, Wormpep215 and Wormrna215 Thu May 27 18:15:29 BST 2010 ....gz - latest WormRNA release containing non-coding RNA's in the genome19 KB (1,735 words) - 11:07, 21 December 2011
- Link to SAB meeting wiki page http://wiki.wormbase.org/index.php/2018_Advisory_Board_Meeting *Working on data model for RO led to a discussion at Caltech about how much associated data for ea11 KB (1,898 words) - 16:43, 7 June 2018
- *What would WormBase look like without any manually curated data? *Interaction model changed to update genetic interaction terms8 KB (1,225 words) - 16:33, 3 October 2013
- === WormBase Ontology Browser (WOBr) === === ?Expr_pattern and ?Movie model changes ===13 KB (1,983 words) - 16:40, 7 November 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
- *?Human_disease model vs tag in ?Gene model? *Similar discussion to ?Process model discussion5 KB (847 words) - 17:49, 1 March 2012
- ...hat are unique and powerful in worm, including single cell transcriptomics/sequence analysis, neural circuits, metabolomics, proteomics, ncRNA orthologs. ...inding site (for example, a schematic of promoter etc. on the current gene model).11 KB (1,649 words) - 16:10, 19 July 2018
- ** 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 species11 KB (1,714 words) - 11:04, 27 July 2015
- New genome assemblies and gene names across species *How do we handle independent, conflicting genome assemblies and gene models?8 KB (1,161 words) - 16:34, 7 March 2013
- *Sequence and protein curation: tools, databases (topic-specific; pathways, cancer, e *Whole-genome sequencing of individuals7 KB (1,158 words) - 17:20, 3 May 2012
- ===Sequence feature curation=== Main outline [https://docs.google.com/a/wormbase.org/document/d/1l6pExlCMI88pi_-djk8jt7IzNsMDV-nIEY9Z1gBNh-A/edit here]- not10 KB (1,453 words) - 18:52, 4 February 2015
- * 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
- ...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 curates phenotypes, pathways, etc. *WormBase Process curation could really benefit from GO's adoption of this strategy7 KB (1,019 words) - 20:58, 12 April 2012
- ** Ask authors to submit sequence for sequence features, etc. ** Alliance of Genome Resources11 KB (1,703 words) - 15:27, 5 April 2018
- [[WormBase-Caltech_Weekly_Calls_January_2022|January]] [[WormBase-Caltech_Weekly_Calls_February_2022|February]]10 KB (1,547 words) - 21:31, 2 January 2024
- *Performing build without sequence is easy? Do everything without sequence? *How to integrate sequence data with other data once they're decoupled through the patching process?13 KB (2,097 words) - 22:48, 7 April 2011
- * WormBook mirror: will move from wormbase.sanger.ac.uk to * WormBase mirror: will go offline next week Friday7 KB (1,220 words) - 15:50, 25 November 2011
- http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/wormbase/wspec/models.wrm?revision=1.404&root=ensembl&view=markup 2) Clone Class additional ?Sequence connections to remove ambiguity - Paul15 KB (2,374 words) - 16:00, 17 July 2014
- ...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 o21 KB (3,194 words) - 02:08, 17 May 2018
- **We could extend the WormBase web app to interact with SPELL data *Scalability - ACEDB does not scale to genome-scale studies7 KB (1,074 words) - 17:19, 4 October 2012
- ...sion, the dsRNA must have a minimum sequence identity with the target gene sequence. Any phenotype(s) resulting from the RNAi-mediated knockdown of a particula == RNAi Data Model ==29 KB (4,152 words) - 20:29, 30 July 2019
- Ranjana - Preplanning WormBase side meetings at IWM? *Two Wormbase Plenary talks9 KB (1,302 words) - 16:38, 2 June 2011
- ...t genes. The genomic sequence has been aligned to orthologous sites in the genome of ''C. briggsae'', a sibling species of ''C. elegans'' (Stein et al., 2003 ...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
- * Display of Sequence Features on the website ** See github ticket 2867 https://github.com/WormBase/website/issues/2867#issuecomment-4804136523 KB (3,248 words) - 12:58, 22 September 2014
- Karen Yook/wormbase- Caltech/@wbperson712 ...re divide. Growing divide of data in literature and what we can curate and sequence data.29 KB (4,082 words) - 19:15, 11 April 2014
- ...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
- **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 WormBase29 KB (4,254 words) - 20:25, 27 April 2012
- ===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
- .../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
- .../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
- ='''WormBase Gene Ontology Progress Report, December 2011'''= Developer, WormBase, Caltech, Pasadena, CA.13 KB (1,830 words) - 16:40, 13 December 2012
- ==Model Changes== ..._curator and cns_curator||"If you do not have a WBPerson ID please contact WormBase to have one assigned."29 KB (4,575 words) - 16:23, 3 March 2022
- ...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 sequence to the best of your ability and submit that instead), or actual sequence (e.g. "ACGT") of the probe.47 KB (7,989 words) - 23:40, 1 September 2015
- 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
- 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
- [[http://www.wormbase.org/wiki/index.php?title=How_to_FirstPass&action=submit back]] | 2237||cDNA sequence for tmy-1. The accession number of the tmy-1 sequence in the GSDB, DDBJ, EMBL and NCBI is D38539. Those of cDNA clones are as fol40 KB (4,083 words) - 23:02, 13 August 2010
- ...e) can be directed to related objects of a different type (such as the DNA sequence of the gene, or the cells in which the gene is active). One can also do sea ...n of WormBase available in September, 2005 (WS147 release; BioPerl/Generic Model Organism Database software).103 KB (16,375 words) - 23:39, 30 November 2010
- == Model changes for WS244 == * This cycle we see 5 model changes in 4 classes:235 KB (23,325 words) - 10:33, 3 July 2014
- ==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
- Current model (WS280) Sequence ?Sequence XREF Expr_pattern // for clones???104 KB (15,303 words) - 19:39, 11 May 2023
