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• SEED Viewer Manual/FunctionalRoles
  == Functional Role Page == ...mbers are [http://www.geneontology.org GeneOntology] classifications for a role. The link leads to the GO-Viewer [http://amigo.geneontology.org/cgi-bin/ami
  2 KB (268 words) - 14:30, 3 December 2008
• SeedViewer Functional Role
  SEED Viewer Functional Role Page associated with this functional role and within how many different organisms these genes are present.
  536 bytes (87 words) - 14:23, 7 November 2006
• SeedViewer Subsystem
  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
• SEED Viewer Manual/CompareMetabolicReconstruction
  ...l role belongs to. The functional role itself is displayed in column 5 ('''Role'''). ...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 valid
  2 KB (342 words) - 09:43, 2 December 2008
• SeedViewer Annotation
  ...isplayed providing the feature's function assignment, source organism, the role it performs<br> :in a subsystem, and a graphic displaying it's genomic context. If this feature's function
  2 KB (408 words) - 15:24, 7 November 2006
• SeedViewer Home
  ...f the search will be displayed in up to 4 tables, a Functional Role table, Subsystem table,Features table and Organisms table.<br> ...of hits associated with a functional role will appear above the Functional Role table. <br>
  3 KB (582 words) - 15:09, 7 November 2006
• SEED Viewer Manual/OrganismPage
  === 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
• SEED Viewer Manual/Subsystems
  A [[Glossary#Subsystem|subsystem]] is a collection of [[Glossary#Functional role|functional roles]] that are associated to each other in a system. Such a sy ...notes. The last tab displays the [[Glossary#Scenarios|Scenarios]] for the subsystem.
  8 KB (1,271 words) - 09:13, 12 December 2008
• SEED Viewer Manual/SearchGene
  ...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 genome
  2 KB (384 words) - 11:21, 2 December 2008
• Keyword Box
  ...words derived by that step for the gene '''fig|171101.1.peg.269''', a dual-role protein encoding gene for ''Streptococcus pneumoniae r6'' that has 40 keywo | '''All words in the functional role''' || Dihydroneopterin, aldolase 2-amino-4-hydroxy-6-hydroxymethyldihydropt
  4 KB (479 words) - 14:17, 29 July 2007
• SEED Viewer Manual/Find
  - Subsystem Names ...ix search (meaning that the keyword can be part of an organism, functional role etc.):
  1 KB (227 words) - 07:33, 26 November 2008
• SEED Viewer Numbers
  : 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
• SEED Viewer Tutorial
  ...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 in
  7 KB (1,219 words) - 22:33, 11 June 2007
• SEED Viewer Manual/GenomeBrowser
  ...[[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 t
  4 KB (630 words) - 05:58, 5 December 2008
• MG-RAST Numbers
  * ''Subsystem Counts'' ...ng sequences which are part of the according group, subgroup, subsystem or role.
  4 KB (626 words) - 11:13, 3 October 2007
• SEED Viewer Manual/FIGfamViewer
  ...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 exp
  2 KB (361 words) - 15:07, 3 December 2008
• Annotation of close strain sets
  ...to offer a precise definition. It corresponds roughly to a single logical role that a gene or gene product may play in the operation of a cell. ...ction''': The function of a protein-encoding gene (PEG) is the functional role played by the product of the gene or an expression describing a set of role
  10 KB (1,581 words) - 15:03, 4 December 2006
• Evidence Page
  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 PEG
  8 KB (1,348 words) - 16:32, 30 April 2008
• Glossary
  ...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
• SEED Viewer Manual
  ...|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

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