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- SEED Viewer Subsystem Page ...ystem' menu in the green bar at the top of the page to view the 'Populated Subsystem' spreadsheet or to 'View Notes' for this susbystem.<br>3 KB (585 words) - 14:09, 7 November 2006
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- ...system'''. The subsystem name links to its [[SEED_Viewer_Manual/Subsystems|Subsystem]] page. The name of the '''Scenario''' is displayed in the fourth column. T1 KB (197 words) - 13:11, 3 December 2008
- ...erent tabs show you information about the '''Size Distribution''', the '''Subsystem Coverage''' and '''Quality Control''' of the FIGfams. === Subsystem Coverage ===1 KB (209 words) - 05:44, 4 December 2008
- SEED Viewer Subsystem Page ...ystem' menu in the green bar at the top of the page to view the 'Populated Subsystem' spreadsheet or to 'View Notes' for this susbystem.<br>3 KB (585 words) - 14:09, 7 November 2006
- === Subsystem Information === ...nized in a tab view, where the first tab shows a graphical overview of the subsystem information, while the second part lists all features in subsystems in a [[4 KB (602 words) - 09:48, 18 November 2008
- ...features with assigned with the functional role that are part of the given subsystem. ...imilarities|Similarities]] of all '''reference feature''' (features in the subsystem that are assigned with the function) to the features of the selected genome2 KB (384 words) - 11:21, 2 December 2008
- | '''[[FidSearch]]''' || Display genes from one or more genomes filtered by subsystem or keywords. | '''[[SubSearch]]''' || Search for genes in a given subsystem or subsystem class.2 KB (268 words) - 12:51, 26 July 2007
- ...f the search will be displayed in up to 4 tables, a Functional Role table, Subsystem table,Features table and Organisms table.<br> ...quick search' option, the results will be limited to functionals role in a subsystem.3 KB (582 words) - 15:09, 7 November 2006
- ...temPaperSupplementalMaterial/index.html Supplementary material for the NAR Subsystem Paper]304 bytes (42 words) - 13:03, 16 August 2006
- ...lumns ('''Category''', '''Subcategory''' and '''Subsystem''') describe the subsystem the functional role belongs to. The functional role itself is displayed in ...for that feature. The following column '''SS active A''' tells you if the subsystem listed in the line is active in the Organism A, meaning that it has a valid2 KB (342 words) - 09:43, 2 December 2008
- : The number of different subsystem in which at least one member was found in the fragments of the genome. * ''Subsystem Counts''3 KB (544 words) - 12:48, 15 August 2007
- :in a subsystem, and a graphic displaying it's genomic context. If this feature's function :If this feature is included in a subsystem detailed information about this feature's role or roles in one or more subs2 KB (408 words) - 15:24, 7 November 2006
- A [[Glossary#Subsystem|subsystem]] is a collection of [[Glossary#Functional role|functional roles]] that are ...notes. The last tab displays the [[Glossary#Scenarios|Scenarios]] for the subsystem.8 KB (1,271 words) - 09:13, 12 December 2008
- * ''Subsystem Counts'' ...umber of coding sequences which are part of the according group, subgroup, subsystem or role.4 KB (626 words) - 11:13, 3 October 2007
- - Subsystem Names - Subsystem Names1 KB (227 words) - 07:33, 26 November 2008
- ...t part of the top table shows the '''Functional Role''' and the context '''Subsystem'''. If present, an '''EC-number''' or '''GO-number''' and '''Reactions''' a2 KB (268 words) - 14:30, 3 December 2008
- ...|Subsystem Page]]. You can narrow the selection by typing in a part of the subsystem name into the field on top of the select box. ...it may take forever). If you already know that you are looking for, e.g. a subsystem, it would be faster to use the Subsystems tab.4 KB (663 words) - 12:10, 15 December 2008
- other genes from the same subsystem (very strong evidence). There may be several of these for a PEG (up to one for each subsystem the PEG8 KB (1,348 words) - 16:32, 30 April 2008
- ...are linked to the [[SEED_Viewer_Manual/Subsystems|Subsystems Page]] of the subsystem. The '''FIGfam Size''' is the number of members of the FIGfam. The '''Avera ...tation|Annotation Page]]), the '''Organism''' it belongs to, '''Associated Subsystem''' (there can be more than one) and the function of the member. You can exp2 KB (361 words) - 15:07, 3 December 2008
- This page list the subsystem(s) for a functional role and if present, EC number, associated GO terms, an536 bytes (87 words) - 14:23, 7 November 2006
- ...oles and attempt to accurately identify exactly what variant, if any, of a subsystem exists in each of the genomes. please see [[#SubsystemClearinghouse|Subsystem Clearinghouse]]11 KB (1,758 words) - 11:50, 3 December 2008
- ...[[Glossary#Functional_role|functional role]] and the [[Glossary#Subsystem|subsystem(s)]] it's in. In addition, features can be colored by different metaphors: by subsystem, by filter options of the Feature Table (the features that are present in t4 KB (630 words) - 05:58, 5 December 2008
- ...oles and attempt to accurately identify exactly what variant, if any, of a subsystem exists in each of the genomes. ...exist within each genome (special codes expressing a total absence of the subsystem or remaining uncertainty exist). Construction of a large set of curated po10 KB (1,581 words) - 15:03, 4 December 2006
- ...n the last column. ''ISU'' means that the feature is unique in a cell of a subsystem. This means that there is no other feature in the genome that is thought to4 KB (669 words) - 08:26, 8 December 2008
- | '''The [[subsystem]] names and classifications''' || folate, biosynthesis, cofactors, vitamins | '''The [[subsystem role]] || 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine, pyrophosphokin4 KB (479 words) - 14:17, 29 July 2007
- ...of protein encoding genes for this genome that are present in at least one subsystem. ...are presented in tabular form with information regarding function, EC and subsystem involvement displayed. Each protein is linked to the Annotation Overview in7 KB (1,219 words) - 22:33, 11 June 2007
- MG-RAST (Metagenome Rapid Annotation using Subsystem Technology) is a fully-automated service for annotating metagenome samples. ...lysis the fragments in a given sample will be compared to protein, RNA and subsystem databases.5 KB (808 words) - 17:24, 28 June 2008
- ...r dataset in which to based you profile. For metabolic reconstructions the Subsystem dataset is available. For phylogeny, RDP, Silva, European Ribosomal and GRE ...our database and modify your parameters. For metabolic reconstructions the Subsystem dataset is available. For phylogeny, RDP, Silva, European Ribosomal and GRE7 KB (1,182 words) - 17:03, 8 September 2008
- :in a subsystem, and a graphic displaying it's genomic context.1 KB (240 words) - 15:44, 3 November 2006
- :[[SeedViewer_Subsystem| Subsystem page]]1 KB (218 words) - 14:05, 7 November 2006
- ...including the [[Glossary#Functional role|functional role]], the [[Glossary#Subsystem|subsystems]] and some values describing the hit area. ...re are displayed in the next column. If the feature is not associated to a subsystem, you will find the text ''None added'' in the cell.10 KB (1,553 words) - 08:31, 8 December 2008
- ...to subsystems, the specification of the functional roles that make up each subsystem, and the inventory of which genes in a specific organism implement the func ...et of genes implements the abstract functional roles). Precisely the same subsystem and functional roles exist in distinct organisms, although obviously the ge23 KB (3,543 words) - 15:37, 7 August 2007
- ...of protein encoding genes for this genome that are present in at least one subsystem.<br>3 KB (522 words) - 15:16, 7 November 2006
- ...[[Glossary#Annotation|annotation]]) is done via the curation of [[Glossary#Subsystem|subsystems]] by an expert annotator across many genomes, not on a gene by g3 KB (445 words) - 15:52, 11 June 2010
- The RAST (Rapid Annotation using Subsystem Technology) Server provides high quality genome annotations for prokaryotes5 KB (745 words) - 13:15, 24 August 2007
- ...Microbial Pathogen Database Resource (NMPDR): A genomics platform based on subsystem annotation. Nucleic Acids Res. 2007 Jan;35(Database issue):D347-53 [http://13 KB (1,970 words) - 15:59, 14 May 2008