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- | Species **[[Other nematodes|Other nematodes]]5 KB (641 words) - 08:30, 27 September 2010
- ?Species Common_name ?Text Protein ?Protein XREF Species411 bytes (44 words) - 09:14, 17 August 2010
- ''Caenorhabditis species 9'' is a gonochoristic species in Clade V<br> ...ation by C. species 7. Since species 9 has mostly species 9 genes and some species 7 genes, there is actually added value to having it, as long as people know627 bytes (83 words) - 10:05, 3 February 2012
- ''Caenorhabditis sp. 5'' is a member of the Elegans group of species, gonochoristic species, requiring mating between males and females for2 KB (301 words) - 09:54, 28 March 2017
- ''Caenorhabditis species 11'' is a androdioecious species in Clade V<br> [[Category:Other species]]286 bytes (30 words) - 15:58, 15 December 2011
- ''Caenorhabditis species 7'' is a gonochoristic species in Clade V<br> [[Category:Other species]]283 bytes (30 words) - 16:01, 15 December 2011
- ===Nematode Species Mentioned in Titles and Abstracts of Current Papers===525 bytes (60 words) - 15:34, 17 May 2016
- Whenever a new species is added, we need to update the website in several places. ...cedure described below is for non-core species (aka Tier III). When a core-species (aka Tier II) is added, which shouldn't happen too often, different steps n802 bytes (113 words) - 14:10, 10 April 2014
- *Survey organism databases for methods of presenting and navigating between species. *Codify best practices for presentation of multiple species data.885 bytes (118 words) - 16:42, 9 November 2010
- 36 bytes (3 words) - 09:22, 5 January 2011
- ...dentify strengths and weaknesses, we'll first start with a quick survey of other MODs. This will further a second goal of creating a current list of availa430 bytes (67 words) - 16:41, 9 November 2010
- #REDIRECT [[Working Group:Handling Multiple Species:2010.11.09]]64 bytes (6 words) - 16:41, 9 November 2010
Page text matches
- ''Caenorhabditis species 9'' is a gonochoristic species in Clade V<br> ...ation by C. species 7. Since species 9 has mostly species 9 genes and some species 7 genes, there is actually added value to having it, as long as people know627 bytes (83 words) - 10:05, 3 February 2012
- ...ies Class, the removal of an XREF from the ?Species class and addition of ?Species to a small number of classes. > // Species class1 KB (124 words) - 11:01, 19 April 2011
- ''Caenorhabditis species 11'' is a androdioecious species in Clade V<br> [[Category:Other species]]286 bytes (30 words) - 15:58, 15 December 2011
- ''Caenorhabditis species 7'' is a gonochoristic species in Clade V<br> [[Category:Other species]]283 bytes (30 words) - 16:01, 15 December 2011
- ...a genome browser for species-x, type in a C. elegans gene name and get the species-x ortholog(s).189 bytes (30 words) - 17:58, 16 August 2010
- == Species page == ...from WB ParaSite release 16 - how can we update this webpage with the new species? Update from last week864 bytes (136 words) - 15:41, 21 October 2021
- ''Caenorhabditis elegans'' is the best-characterized species in the ''Caenorhabditis'' genus, or, for that matter, in the nematode phylu ...w.wormbook.org/chapters/www_quicktourdiversity/quicktourdiversity.html all other nematodes] is described in WormBook, as is what little is known of its [htt2 KB (214 words) - 15:45, 15 December 2011
- ...s that may suggest assembly errors. It is intended mainly for the species other than ''C. elegans'' as these errors are more likely to be corrected.317 bytes (48 words) - 18:21, 16 August 2010
- Whenever a new species is added, we need to update the website in several places. ...cedure described below is for non-core species (aka Tier III). When a core-species (aka Tier II) is added, which shouldn't happen too often, different steps n802 bytes (113 words) - 14:10, 10 April 2014
- ''Bursaphelenchus xylophilus'' is a gonochoristic species in Clade IV<br> [[Category:Other species]]264 bytes (27 words) - 13:49, 27 March 2012
- ''Caenorhabditis drosophilae'' is a species in Clade V<br> [[Category:Other species]]247 bytes (25 words) - 16:17, 15 December 2011
- ''Ascaris suum'' is a gonochoristic species in Clade III<br> [[Category:Other species]]256 bytes (27 words) - 16:14, 15 December 2011
- ''Steinernema carpocapsae'' is a gonochoristic species in Clade V<br> [[Category:Other species]]282 bytes (29 words) - 16:09, 15 December 2011
- ''Trichinella spiralis'' is a gonochoristic species in Clade I<br> [[Category:Other species]]279 bytes (29 words) - 16:16, 15 December 2011
- ||/Transcript/Origin[1]/Species[1]/Species[1]368 bytes (41 words) - 20:17, 2 May 2013
- Species ?Species300 bytes (27 words) - 08:59, 5 October 2010
- ||/CDS/Origin[1]/Species[1]/Species[1]447 bytes (50 words) - 20:12, 2 May 2013
- = Browse Species = * '''#species''': show the Genus list.1 KB (193 words) - 15:28, 19 June 2014
- == New Species for WS241 == === New Core Species ===2 KB (309 words) - 19:45, 5 December 2013
- ||/Protein/Origin[1]/Species[1]/Species[1]476 bytes (56 words) - 20:17, 2 May 2013
- ?Species Common_name ?Text Protein ?Protein XREF Species411 bytes (44 words) - 09:14, 17 August 2010
- ===Nematode Species Mentioned in Titles and Abstracts of Current Papers===525 bytes (60 words) - 15:34, 17 May 2016
- *Survey organism databases for methods of presenting and navigating between species. *Codify best practices for presentation of multiple species data.885 bytes (118 words) - 16:42, 9 November 2010
- === Support for 'non-canonical' species at the Alliance === ...ical issues surrounding support for 'non-canonical' species (those species other than the main 8 currently supported at the Alliance)2 KB (348 words) - 17:52, 2 February 2023
- ===Handling species lists=== * Handling species in WormBase and Alliance3 KB (440 words) - 08:42, 3 September 2020
- ||/Gene/Identity/Species/Species962 bytes (119 words) - 20:15, 2 May 2013
- ...nding page -e.g. under species menu. Show both assemblies. Advertise other species genomes on blog/news. * Discussion on giving WormBase IDs for other species. Michael P: for people tend to use genebank IDs is not obvious to map/searc929 bytes (147 words) - 19:14, 21 February 2013
- ...ember of the Elegans group, but the Elegans group's closest known outgroup species. It was selected for genomic sequencing on account of its providing the bes 1. A [http://dx.doi.org/10.1163/156854102321122557 species description article] in [http://www.ingentaconnect.com/content/brill/nemy '2 KB (264 words) - 16:01, 15 December 2011
- Origin Species UNIQUE ?Species930 bytes (84 words) - 14:02, 4 October 2010
- ...o species objects as the taxon I'd in the file is different to that in the species object in WormBase.704 bytes (104 words) - 12:27, 28 January 2014
- = Species Collection = It represents the species list as returned by the API.998 bytes (168 words) - 15:29, 19 June 2014
- == 3. Cross species searching; debug GBrowse search (Norie; 10 minutes) == http://dev.wormbase.org:9004/species/gene/WBGene00006763681 bytes (71 words) - 21:26, 12 January 2011
- ''Caenorhabditis brenneri'' is a gonochoristic (male-female) species closely related to ''C. elegans'' (i.e., a fellow member of the Elegans gro ...t has had several formal or informal synonyms, such as "''Caenorhabditis'' species 4" ("''C''. sp. 4"), "''C''. sp. CB5161" (or just "CB5161"), and "''C''. sp2 KB (291 words) - 15:59, 15 December 2011
- ''Caenorhabditis remanei'' is a gonochoristic (male-female) species closely related to ''C. elegans'' (i.e., a fellow member of the Elegans gro Some earlier studies of non-''elegans'' species occasionally misidentified ''C. remanei'' as "''C. vulgaris''", or confused2 KB (229 words) - 15:56, 15 December 2011
- ...aenorhabditis_japonica. Unpublished preferably for Ensembl Pages for these species.162 bytes (19 words) - 15:31, 3 August 2023
- [[Category:Other species]]122 bytes (13 words) - 16:18, 15 December 2011
- [[Category:Other species]]119 bytes (13 words) - 16:19, 15 December 2011
- [[Category:Other species]]130 bytes (13 words) - 16:19, 15 December 2011
- [[Category:Other species]]123 bytes (13 words) - 16:19, 15 December 2011
- [[Category:Other species]]127 bytes (13 words) - 16:19, 15 December 2011
- [[Category:Other species]]117 bytes (13 words) - 16:20, 15 December 2011
- ...GAF files C. elegans specific? We have 39 expression annotations to other species (remanei, brenneri, brugia). ok to leave them out? If not, make sure that t ...ns? New GO GAF specifications have taxonID, so a single file with multiple species would be ok.3 KB (462 words) - 17:47, 4 February 2021
- Species UNIQUE ?Species1 KB (120 words) - 09:24, 10 August 2010
- The species model has been extended to contain more evidence and reference fields, whic * WS280 ?Species model additions925 bytes (145 words) - 14:56, 18 February 2021
- ...so benefit the project at the Alliance of Genome Resources for the 6 other species ...to human health such as..... Currently the majority of the data for these species is predicted data based on computational data such as InterPro2GO. We will2 KB (274 words) - 19:30, 21 August 2022
- Origin Species UNIQUE ?Species1 KB (129 words) - 09:51, 5 October 2010
- Species UNIQUE ?Species // added by krb 15/02/02 Species2 KB (193 words) - 14:28, 4 October 2010
- == GO::Species Annotation == It looks like we have ?Species objects for each of these bacteria, but4 KB (617 words) - 17:14, 23 January 2014
- pulling out the set of Live proteins for a given species, the added benefit of these tags is removed as the subclasses also gueries the species tag which slows it back up.2 KB (305 words) - 08:49, 5 October 2010
- == Updated species page == https://wormbase.org/species/all#0123--101 KB (229 words) - 16:05, 15 July 2021
- * species dependent - TH * TH - there are species with GFF3 only, nothing in ace2 KB (248 words) - 20:52, 27 March 2013
- ...se the ortholog info from ensemble compara we can immediately apply to 100 species -the blastP pipeline has only 8. Added Yanai's expression graphs for other species1 KB (164 words) - 17:33, 15 January 2015
- |Species | Species as an Ace::Object.2 KB (271 words) - 14:09, 19 June 2014
- Target_species UNIQUE ?Species Target_species UNIQUE ?Species1 KB (161 words) - 15:04, 1 November 2010
- Species UNIQUE ?Species // added by krb [021021]1 KB (119 words) - 16:43, 11 April 2013
- C. elegans current release [ftp://ftp.wormbase.org/pub/wormbase/species/c_elegans/gff/c_elegans.current.annotations.gff2.gz post-processed.gff2.gz] C. briggsae current release [ftp://ftp.wormbase.org/pub/wormbase/species/c_briggsae/gff/c_briggsae.current.annotations.gff2.gz post-processed.gff2.g8 KB (1,219 words) - 22:33, 24 October 2011
- == 5. SPELL for Tier II species == *RNA-seq data is becoming available for Tier II species2 KB (303 words) - 09:13, 5 October 2012
- Species ?Species #Evidence Added non-unique species connectivity so that papers can be sorted by species.2 KB (260 words) - 11:11, 27 July 2012
- Merged BLAST search for species with multiple BioProjects gbrowse feature request Under testing Test GFF3 and update species still using Bio::DB::GFF to Bio::DB::SeqFeature::Store administration gbrow1 KB (160 words) - 14:45, 16 July 2013
- Species class ?Species3 KB (306 words) - 10:00, 26 October 2011
- // possibility to refer to other Intervals to describe a complex rearrangement Species UNIQUE ?Species3 KB (265 words) - 08:51, 5 October 2010
- ** options for species/bioproject ids disappear when you select blat * Dual display - species wiht mult bioproject ids1 KB (178 words) - 14:46, 9 July 2013
- * #910 -Test GFF3 and update species still using Bio::DB::GFF to Bio::DB::SeqFeature::Store administration gbrow * #1511 - remove links to non-curated species strains1 KB (142 words) - 14:49, 3 September 2013
- * Gary feedback - will add species/strain/lifestage/etc... ** everything fine but tier II or III species991 bytes (135 words) - 14:55, 8 October 2013
- == 7. Discuss searching other species progress (Norie; 5 minutes) ==996 bytes (130 words) - 20:51, 29 September 2010
- *Oligo_set mapping as we do for other classes. *Addition of ?Species3 KB (475 words) - 14:53, 19 February 2013
- ''Caenorhabditis sp. 5'' is a member of the Elegans group of species, gonochoristic species, requiring mating between males and females for2 KB (301 words) - 09:54, 28 March 2017
- Species UNIQUE ?Species3 KB (223 words) - 09:22, 10 August 2010
- Origin Species UNIQUE ?Species2 KB (184 words) - 08:38, 17 August 2010
- ...ode known to serve as a vector for a bacterial disease of insects. The new species also exhibits heterogony.1 KB (185 words) - 16:04, 15 December 2011
- .... Draft complete genome sequences have been generated for several of these other nematodes, some of which are being curated by WormBase. For these organisms == Species Prefixes ==6 KB (977 words) - 19:43, 14 June 2011
- ***Do we want other filters? **For genes, the ace file contains ALL the gene objects in WB regardless of species.4 KB (600 words) - 18:40, 2 February 2022
- * other critical issues? == JD needs updated species file ==1 KB (199 words) - 15:33, 31 May 2013
- * Kimberly's Species tag in Paper model will be added for WS234 ...es and from there go directly to GBrowse, Blast..This is to make different species easily accessible.4 KB (503 words) - 08:30, 22 June 2012
- == [[Working Group:Handling Multiple Species|Handling Multiple Species]] ==2 KB (306 words) - 15:01, 14 January 2016
- ** Working on new species and updating config221 bytes (25 words) - 15:11, 17 December 2013
- ..., anti-rabbit antibodies, etc..). We have some papers, though that mention other nematodes with a low count (especially for phylogenetic studies) but might ...identifies those papers and populates a reference widget in WB for a given species (e.g. brenneri, japonica, pacificus, ..)?3 KB (490 words) - 17:22, 18 June 2020
- ''Caenorhabditis briggsae'' is a hermaphroditic species closely related to ''C. elegans'' (i.e., a fellow member of the Elegans gro [[Category:Other species]]2 KB (312 words) - 15:46, 15 December 2011
- **We needed seven new GO codes to incorporate PAINT and other external annotations. ...nce the GO annotations refer to a specific strain of these bacteria. Each species, and a sample PMID, are listed below:1 KB (199 words) - 19:08, 10 February 2014
- As the modENCODE DCC is overwhelmed with other work, she has proposed that WormBase make the data available to the public. ...to extract all our data from primary resources that can be referred to by other groups.5 KB (796 words) - 21:05, 10 March 2014
- *Note that we also run three scripts to populate species information for each abstract. ...es in the text of the abstracts, the other associates species based on the species information for associated genes (gin_species).3 KB (532 words) - 13:33, 31 March 2022
- * sequences for proteins and genomic features for all species except C.sp 5 and C.sp.11 ...een expanded to represent all species in wormbase (besides any of the "sp" species)2 KB (361 words) - 16:32, 17 October 2013
- ...Species UNIQUE ?Species //added by pad, as we are moving towards multi species readyness.4 KB (394 words) - 08:39, 16 September 2014
- == 3. Variation and RNASeq data from non-core species (Mary Ann) == sequence data from VW8 and LM (2 other isolates of M. hapla), as well4 KB (599 words) - 00:25, 4 May 2012
- | Species **[[Other nematodes|Other nematodes]]5 KB (641 words) - 08:30, 27 September 2010
- * #1511 - remove links to non-curated species strains * #910 -Test GFF3 and update species still using Bio::DB::GFF to Bio::DB::SeqFeature::Store administration gbrow1 KB (188 words) - 14:50, 27 August 2013
- -species => <span><font color="#ff0000">'Caenorhabditis elegans'</font></span>,-g -species => <span><font color="#ff0000">'Caenorhabditis briggsae'</font></span>,-21 KB (2,963 words) - 18:18, 11 August 2010
- = SOPs for Getting Different Species GO Annotations into WB and GOC = ****IDs that correspond to non-elegans species, used for ISS annotations or the occasional annotation extension (column 85 KB (811 words) - 18:52, 3 November 2015
- ...date list of genomes in WormBase can be found at: http://www.wormbase.org/species/all **[[Other nematodes|Other nematodes]]662 bytes (82 words) - 15:07, 14 January 2016
- Add Species UNIQUE ?Species2 KB (294 words) - 16:14, 16 August 2012
- Species UNIQUE ?Species3 KB (252 words) - 16:46, 9 January 2014
- == Expr_pattern Species tag - Daniela == I would also like to add a Species tag in the Expr_pattern class5 KB (663 words) - 16:47, 5 December 2014
- ...the main function of handling the requests for the router, it initializes other views (those representing pages) and triggers the jQueryMobile's change pag = Browse Species View =4 KB (562 words) - 15:29, 19 June 2014
- ...as its siblings (Cho et al., 2004; Kiontke et al., 2004). Of these sibling species, three (''C. briggsae, C. remanei'', and C. sp. CB5161) have been isolated ...e Synteny Viewer gives an alignment of the ''zyg-1/bli-2'' cluster in both species.4 KB (705 words) - 20:02, 11 August 2010
- * organized by release and symlinks reorg access via species -- all files have name/version/content * allows addition of new species data for availability1 KB (182 words) - 20:41, 11 May 2011
- * WBPaper00046462 The recent discovery of a C. briggsae sister species, C. nigoni, has opened up the possibility of dissecting the genetic basis of HI in nematode species. However,3 KB (452 words) - 21:59, 20 March 2015
- ./wormbasegff2togff3.pl -gff elegansWSXXX.gff2 -species | gzip -c > elegansWSXXX.gff3.gz ...The script can handle both the C. elegans and C. briggsae GFF2 files. The species must be specified in command-line.2 KB (286 words) - 18:26, 11 August 2010
- *Discussion of literature pipeline for other nematodes **Which species?4 KB (641 words) - 15:23, 19 June 2012
- ***Aligned with other data in WormBase, timing needs to be calibrated *Discontinuity between species with regards to the data we capture4 KB (609 words) - 20:57, 3 November 2011
- Endogenous_in ?Species #Evidence Essential_for ?Species #Evidence6 KB (543 words) - 23:29, 15 March 2016
