User contributions
From WormBaseWiki
Jump to navigationJump to search- 19:13, 30 August 2010 diff hist +133 Dumping Script
- 18:53, 30 August 2010 diff hist +223 Dumping Script
- 18:51, 30 August 2010 diff hist +20 Paper Pipeline
- 19:40, 27 August 2010 diff hist -3 WormBase
- 19:38, 27 August 2010 diff hist +526 WormBase
- 20:13, 4 August 2010 diff hist +58 Caltech documentation
- 19:57, 4 August 2010 diff hist -14 Caltech documentation →Datatype Curation
- 19:57, 4 August 2010 diff hist -11 Caltech documentation →Datatype Curation
- 19:56, 4 August 2010 diff hist -130 Postgres management Blanked the page current
- 19:50, 4 August 2010 diff hist +5 Postgres management
- 19:49, 4 August 2010 diff hist +32 Postgres management
- 19:48, 4 August 2010 diff hist +85 N File:WBGene update pipeline.ppt Flow diagram of WBGene info updates from latest WormBase release (WS) and Nameserver. current
- 19:45, 4 August 2010 diff hist +93 N Postgres management Created page with 'Flow diagram of WBGene info updates from the latest WormBase release (WS) and the Nameserver:'
- 19:12, 4 August 2010 diff hist +25 Caltech documentation →Datatype Curation
- 21:29, 24 June 2010 diff hist +1,647 Phenotype2GO Paper Inclusion List
- 19:49, 24 June 2010 diff hist +219 Phenotype2GO Paper Inclusion List
- 19:35, 24 June 2010 diff hist +28 Phenotype2GO Paper Inclusion List
- 19:31, 24 June 2010 diff hist +373 N Phenotype2GO Paper Inclusion List Created page with 'All papers in the list have the curation flag 'Phenotype2GO' in the paper_editor.cgi WBPaper00004402 WBPaper00004403 WBPaper00004540 WBPaper00004651 WBPaper00004769 WBPaper…'
- 19:27, 24 June 2010 diff hist +39 Gene Ontology →Phenotype2GO Mappings for Biological Process Annotation (Variation2GO and RNAiPhenotype2GO)
- 13:35, 15 April 2010 diff hist +39 Removing Dead Genes from Papers →Removing Dead Genes Going Forward: Using the New Paper Editor and the Dumping Script
- 13:34, 15 April 2010 diff hist +29 Removing Dead Genes from Papers →Removing Dead Genes Going Forward: Using the New Paper Editor and the Dumping Script
- 13:34, 15 April 2010 diff hist +620 Removing Dead Genes from Papers →Removing Dead Genes: Using the New Paper Editor
- 13:30, 15 April 2010 diff hist +930 Removing Dead Genes from Papers →Removing Dead Genes: Transferring Data from Old to New Postgres Tables
- 13:23, 15 April 2010 diff hist -2 Removing Dead Genes from Papers
- 13:22, 15 April 2010 diff hist +129 N Removing Dead Genes from Papers New page: ==Removing Dead Genes: Transferring Data from Old to New Postgres Tables== ===Removing Dead Genes: Using the New Paper Editor===
- 13:21, 15 April 2010 diff hist +37 2010 - Paper Pipeline: Documentation and Instructions
- 15:05, 11 April 2010 diff hist +68 Attaching Genes to Papers
- 15:04, 11 April 2010 diff hist +2 Attaching Genes to Papers
- 15:04, 11 April 2010 diff hist +438 N Attaching Genes to Papers New page: ==Genes Attached upon Paper Approval== When papers are added to postgres using the Enter New Papers function of the Paper Editor, the corresponding abstracts are scanned, via a script, fo...
- 14:57, 11 April 2010 diff hist +31 2010 - Paper Pipeline: Documentation and Instructions
- 11:50, 9 April 2010 diff hist +5 N-Z titles
- 18:45, 8 April 2010 diff hist +69 Dumping Script
- 18:45, 8 April 2010 diff hist +296 N Dumping Script New page: The dumping script will check for any dead gene IDs attached to papers and comment them out of the .ace file until they are fixed/deleted from postgres by a curator. The AQL query that fi...
- 18:43, 8 April 2010 diff hist +20 2010 - Paper Pipeline: Documentation and Instructions
- 18:34, 8 April 2010 diff hist +28 Merging Papers →New Protocol
- 18:25, 8 April 2010 diff hist +28 Merging Papers →New Protocol
- 15:41, 8 April 2010 diff hist +151 N Meeting abstracts New page: Meeting_abstracts will get the not_designated tag with respect to the primary/not_primary/not_designated tags. Back to Entering New Paper Objects current
- 15:40, 8 April 2010 diff hist +40 Gazette articles
- 15:39, 8 April 2010 diff hist -33 Gazette articles
- 15:39, 8 April 2010 diff hist +142 N Gazette articles New page: Gazette_articles will get the not_designated tag with respect to the primary/not_primary/not_designated tags. Back to Entering New Papers
- 18:25, 7 April 2010 diff hist +96 DictyBase
- 18:09, 7 April 2010 diff hist +603 Merging Papers →New Protocol
- 18:05, 7 April 2010 diff hist +201 Merging Papers →New Protocol
- 17:56, 7 April 2010 diff hist +212 Merging Papers →New Protocol
- 17:53, 7 April 2010 diff hist +234 Merging Papers →New Protocol
- 17:49, 7 April 2010 diff hist +43 Merging Papers →New Protocol
- 17:46, 7 April 2010 diff hist +1 Merging Papers →New Protocol
- 17:43, 7 April 2010 diff hist +99 Merging Papers →New Protocol
- 17:31, 7 April 2010 diff hist +308 Merging Papers →New Protocol
- 17:23, 7 April 2010 diff hist +213 Merging Papers →New Protocol
- 17:21, 7 April 2010 diff hist +336 Merging Papers →New Protocol
- 17:10, 7 April 2010 diff hist +385 Merging Papers →New Protocol
- 16:54, 7 April 2010 diff hist +39 Merging Papers
- 16:52, 7 April 2010 diff hist +20 2010 - Paper Pipeline: Documentation and Instructions
- 16:51, 7 April 2010 diff hist +39 Books
- 16:50, 7 April 2010 diff hist +308 N Books New page: '''Background:''' When we started using the new Paper Types, we included a new Type, Book. In the past, both books and book chapters were given the Type Book_chapter. In the ?Paper mode...
- 16:50, 7 April 2010 diff hist +62 Entering New Paper Objects
- 16:49, 7 April 2010 diff hist +72 Entering New Paper Objects
- 16:48, 7 April 2010 diff hist -31 2010 - Paper Pipeline: Documentation and Instructions
- 16:47, 7 April 2010 diff hist -308 Creating New Book Objects Removing all content from page current
- 16:47, 7 April 2010 diff hist +68 Entering New Paper Objects
- 16:46, 7 April 2010 diff hist +6 Entering New Paper Objects →''' ''C. elegans'' Papers from PubMed'''
- 15:12, 7 April 2010 diff hist +50 Entering New Paper Objects →What Types of Papers Get Entered
- 15:01, 7 April 2010 diff hist +11 Entering New Paper Objects →What Types of Papers Get Entered
- 15:00, 7 April 2010 diff hist +37 Entering New Paper Objects →What Types of Papers Get Entered
- 14:59, 7 April 2010 diff hist +16 Entering New Paper Objects →What Types of Papers Get Entered
- 14:58, 7 April 2010 diff hist +358 Entering New Paper Objects
- 14:41, 7 April 2010 diff hist -1 Entering New Paper Objects
- 14:41, 7 April 2010 diff hist +215 N Entering New Paper Objects New page: == Entering New Paper Ojbects == Different types of papers can be entered into postgres in different ways, depending upon the type and subject matter of the paper and whether or not the ...
- 14:34, 7 April 2010 diff hist +28 Creating New Book Objects
- 14:33, 7 April 2010 diff hist +33 2010 - Paper Pipeline: Documentation and Instructions
- 16:16, 5 April 2010 diff hist +280 N Creating New Book Objects New page: '''Background:''' When we started using the new Paper Types, we included a new Type, Book. In the past, both books and book chapters were given the Type Book_chapter. In the ?Paper mode...
- 16:09, 5 April 2010 diff hist +58 N 2010 - Paper Pipeline: Documentation and Instructions New page: Back to Paper Pipeline #Creating New Book Objects
- 16:08, 5 April 2010 diff hist +15 Paper Pipeline
- 16:07, 5 April 2010 diff hist +44 Paper Pipeline
- 16:06, 5 April 2010 diff hist +1 N-Z titles
- 16:03, 5 April 2010 diff hist +25 N-Z titles
- 16:31, 24 March 2010 diff hist +2 Reference Genome Reports - Annotation Coverage
- 16:31, 24 March 2010 diff hist +27 Reference Genome Reports - Annotation Coverage
- 16:29, 24 March 2010 diff hist -4 Reference Genome Reports - Annotation Coverage
- 16:29, 24 March 2010 diff hist +2 Reference Genome Reports - Annotation Coverage
- 16:28, 24 March 2010 diff hist -4 Reference Genome Reports - Annotation Coverage
- 16:28, 24 March 2010 diff hist +10 Reference Genome Reports - Annotation Coverage
- 16:27, 24 March 2010 diff hist 0 Reference Genome Reports - Annotation Coverage
- 16:26, 24 March 2010 diff hist +5 Reference Genome Reports - Annotation Coverage
- 16:25, 24 March 2010 diff hist +1,552 Reference Genome Reports - Annotation Coverage
- 16:06, 24 March 2010 diff hist +870 N Reference Genome Reports - Annotation Coverage New page: '''Reference Genome Reports - Annotation Coverage''' Purpose: To report to the GO Consortium the extent of annotation coverage for Reference Genome genes. Annotation Coverage Criteria: ...
- 16:00, 24 March 2010 diff hist +1 Gene Ontology →Scripts
- 15:58, 24 March 2010 diff hist +64 Gene Ontology
- 11:59, 23 March 2010 diff hist +39 Journals
- 11:52, 23 March 2010 diff hist +327 Journals
- 17:13, 22 March 2010 diff hist +13 Phenotype2GO Mappings Sept. 09
- 16:44, 22 March 2010 diff hist +28 Phenotype2GO Mappings Sept. 09
- 16:32, 22 March 2010 diff hist +28 Phenotype2GO Mappings File
- 16:32, 22 March 2010 diff hist +27 Phenotype2GO Mappings File
- 16:31, 22 March 2010 diff hist +19 Phenotype2GO Mappings File
- 15:09, 15 March 2010 diff hist -9 Gene Ontology →Annotation Practices
- 15:07, 15 March 2010 diff hist -2 Gene Ontology →Annotation Practices
- 15:07, 15 March 2010 diff hist +256 Gene Ontology →Annotation Practices
- 15:04, 15 March 2010 diff hist +26 Gene Ontology
- 19:01, 8 March 2010 diff hist +279 N Genes mentioned along with word in Figure or Table category New page: Right now, this seems to be the most promising approach. 'Over-association' will come from things like markers. 'Under-association' will come from lists of genes in figures or tables, bu...
- 14:28, 7 March 2010 diff hist +109 Associating genes with papers
- 16:41, 1 March 2010 diff hist +38 WormBase
- 14:36, 24 February 2010 diff hist -18 Lung Development Targets (November 2009 - February 2010) →December Targets
- 14:35, 24 February 2010 diff hist +26 Lung Development Targets (November 2009 - February 2010) →December Targets
- 14:34, 24 February 2010 diff hist +3 Lung Development Targets (November 2009 - February 2010) →December Targets
- 11:49, 24 February 2010 diff hist +30 Lung Development Targets (November 2009 - February 2010) →December Targets
- 17:20, 18 February 2010 diff hist +1 Journals
- 17:16, 18 February 2010 diff hist +27 N-Z titles
- 17:13, 18 February 2010 diff hist +15 Journals
- 16:57, 18 February 2010 diff hist +20 Journals
- 15:41, 14 February 2010 diff hist +83 Merging Papers
- 19:14, 11 February 2010 diff hist +11 Lung Development Targets (November 2009 - February 2010)
- 19:08, 11 February 2010 diff hist -1 Lung Development Targets (November 2009 - February 2010) →November Targets
- 19:06, 11 February 2010 diff hist +825 Lung Development Targets (November 2009 - February 2010) →November Targets
- 18:49, 11 February 2010 diff hist +13 Lung Development Targets (November 2009 - February 2010) →November Targets
- 18:48, 11 February 2010 diff hist +151 Lung Development Targets (November 2009 - February 2010)
- 18:42, 8 February 2010 diff hist +7 New Paper Model - Model and Changes to Pipeline
- 15:42, 8 February 2010 diff hist -4 New Paper Model - Model and Changes to Pipeline
- 14:05, 8 February 2010 diff hist +2 Journals
- 14:05, 8 February 2010 diff hist +26 Journals
- 14:04, 8 February 2010 diff hist +144 N-Z titles
- 18:08, 7 February 2010 diff hist +134 Lung Development Targets (November 2009 - February 2010)
- 17:35, 7 February 2010 diff hist +22 Lung Development Targets (November 2009 - February 2010)
- 17:33, 7 February 2010 diff hist +30 Lung Development Targets (November 2009 - February 2010)
- 17:08, 7 February 2010 diff hist +86 Lung Development Targets (November 2009 - February 2010)
- 15:14, 7 February 2010 diff hist +38 Lung Development Targets (November 2009 - February 2010)
- 00:08, 7 February 2010 diff hist +38 Ontology Annotator
- 00:08, 7 February 2010 diff hist +2 Ontology Annotator
- 00:05, 7 February 2010 diff hist +1 Ontology Annotator
- 23:52, 6 February 2010 diff hist +98 Ontology Annotator
- 23:38, 6 February 2010 diff hist +19 Gene Ontology
- 22:59, 6 February 2010 diff hist +21 Lung Development Targets (November 2009 - February 2010)
- 22:49, 6 February 2010 diff hist +38 Lung Development Targets (November 2009 - February 2010)
- 22:02, 6 February 2010 diff hist +141 Ontology Annotator →Wish List and Bug Reports, Jan-Feb 2010
- 22:00, 6 February 2010 diff hist +27 Lung Development Targets (November 2009 - February 2010)
- 21:28, 6 February 2010 diff hist +143 Lung Development Targets (November 2009 - February 2010)
- 21:11, 6 February 2010 diff hist -21 Lung Development Targets (November 2009 - February 2010)
- 21:10, 6 February 2010 diff hist +2 Lung Development Targets (November 2009 - February 2010)
- 21:08, 6 February 2010 diff hist +37 Lung Development Targets (November 2009 - February 2010)
- 19:56, 6 February 2010 diff hist +573 N Lung Development Targets (November 2009 - February 2010) New page: Lung Development Gene Annotation Progress {|border="1" cell spacing="0" cellpadding="5" align="center" !Panther ID !C. elegans Target(s) !Curator !Papers !Biological Process !Molecular Fu...
- 19:45, 6 February 2010 diff hist -339 Gene Ontology
- 19:42, 6 February 2010 diff hist +46 Gene Ontology
- 19:41, 6 February 2010 diff hist +182 Gene Ontology
- 19:56, 5 February 2010 diff hist -1 Type - mapping incoming Type
- 18:57, 5 February 2010 diff hist +102 Primary data Tag
- 18:46, 5 February 2010 diff hist +82 Type - mapping incoming Type
- 18:45, 5 February 2010 diff hist +77 Primary data Tag
- 18:43, 5 February 2010 diff hist 0 Primary data Tag
- 13:17, 5 February 2010 diff hist -1 New Paper Model - Model and Changes to Pipeline
- 18:21, 3 February 2010 diff hist +326 Journals
- 18:04, 3 February 2010 diff hist +113 Journals
- 17:55, 3 February 2010 diff hist +39 Journals
- 17:52, 3 February 2010 diff hist +161 Journals
- 17:48, 3 February 2010 diff hist +58 Journals
- 17:38, 3 February 2010 diff hist -10,348 Journals
- 17:37, 3 February 2010 diff hist +14 N-Z titles
- 17:36, 3 February 2010 diff hist +97 N-Z titles
- 17:33, 3 February 2010 diff hist +9,934 N N-Z titles New page: Nano Lett Nanotechnology Nat Biotechnol Nat Cell Biol Nat Chem Biol Nat Genet Nat Immunol Nat Med Nat Med (Tokyo) Nat Methods Nat Neurosci Nat Protoc Nat Rev Drug Discov Nat Rev Genet Nat ...
- 17:33, 3 February 2010 diff hist +34 Journals
- 16:54, 3 February 2010 diff hist +227 Journals
- 16:08, 3 February 2010 diff hist +107 Ontology Annotator
- 15:46, 3 February 2010 diff hist +20 Ontology Annotator
- 15:44, 3 February 2010 diff hist -1 Ontology Annotator
- 15:43, 3 February 2010 diff hist +45 Ontology Annotator
- 15:42, 3 February 2010 diff hist +12 Ontology Annotator
- 15:40, 3 February 2010 diff hist +3 Ontology Annotator
- 15:40, 3 February 2010 diff hist +284 Ontology Annotator
- 14:57, 28 January 2010 diff hist +256 Ontology Annotator →Wish List, Jan-Feb 2010
- 10:41, 26 January 2010 diff hist 0 In book
- 14:23, 22 January 2010 diff hist +81 In book
- 14:23, 22 January 2010 diff hist +82 In book
- 12:30, 20 January 2010 diff hist -6 New Paper Model - Model and Changes to Pipeline
- 12:30, 20 January 2010 diff hist 0 Paper Pipeline
- 18:27, 19 January 2010 diff hist -108 New Paper Model - Model and Changes to Pipeline
- 18:24, 19 January 2010 diff hist -4 New Paper Model - Model and Changes to Pipeline
- 18:21, 19 January 2010 diff hist +85 New Paper Model - Model and Changes to Pipeline
- 18:19, 19 January 2010 diff hist +49 New Paper Model - Model and Changes to Pipeline
- 18:16, 19 January 2010 diff hist -1 New Paper Model - Model and Changes to Pipeline
- 18:07, 19 January 2010 diff hist +83 New Paper Model - Model and Changes to Pipeline
- 17:58, 19 January 2010 diff hist +1 New Paper Model - Model and Changes to Pipeline
- 17:57, 19 January 2010 diff hist +64 New Paper Model - Model and Changes to Pipeline
- 17:56, 19 January 2010 diff hist +3 New Paper Model - Model and Changes to Pipeline
- 17:56, 19 January 2010 diff hist -1 New Paper Model - Model and Changes to Pipeline
- 17:56, 19 January 2010 diff hist +11 New Paper Model - Model and Changes to Pipeline
- 17:55, 19 January 2010 diff hist +5 New Paper Model - Model and Changes to Pipeline
- 17:54, 19 January 2010 diff hist +4,735 New Paper Model - Model and Changes to Pipeline
- 15:36, 5 January 2010 diff hist +34 Paper Pipeline
- 15:21, 5 January 2010 diff hist +40 Abstracts
- 15:20, 5 January 2010 diff hist +69 Associating genes with papers
- 15:13, 5 January 2010 diff hist +2 What to do about non-standard nomenclature current
- 15:13, 5 January 2010 diff hist +167 N What to do about non-standard nomenclature New page: HMMs? But then what? Either check a synonym list or funnel to a curator for manual checking. Back to Associating genes with papers Back to Paper Pipeline
- 15:12, 5 January 2010 diff hist +49 Associating genes with papers
- 15:11, 5 January 2010 diff hist +40 Abstracts
- 13:38, 5 January 2010 diff hist +7 Abstracts
- 13:33, 5 January 2010 diff hist +93 N What to do about new gene names not yet in WB New page: Look for cosmid names. Back to Associating genes with papers Back to Paper Pipeline current
- 12:29, 5 January 2010 diff hist +36 Abstracts
- 12:24, 5 January 2010 diff hist +182 What to do about large-scale papers current
- 12:17, 5 January 2010 diff hist +33 What to do about large-scale papers
- 12:13, 5 January 2010 diff hist +28 Using the Paper Editor
- 12:13, 5 January 2010 diff hist +37 N Using the Paper Editor New page: WBPaper00030839 - empty gene objects?
- 12:13, 5 January 2010 diff hist +18 Paper Pipeline
- 12:09, 5 January 2010 diff hist +9 Abstracts
- 12:08, 5 January 2010 diff hist +182 Abstracts
- 11:48, 5 January 2010 diff hist +3 Abstracts
- 11:48, 5 January 2010 diff hist +21 Abstracts
- 11:37, 5 January 2010 diff hist +52 Abstracts
- 11:22, 5 January 2010 diff hist +39 Associating genes with papers
- 11:19, 5 January 2010 diff hist +20 Abstracts
- 11:19, 5 January 2010 diff hist +27 Associating genes with papers
- 19:03, 4 January 2010 diff hist +51 Associating genes with papers
- 19:02, 4 January 2010 diff hist +34 Abstracts
- 19:01, 4 January 2010 diff hist +3 Abstracts
- 19:01, 4 January 2010 diff hist +65 Abstracts
- 18:58, 4 January 2010 diff hist -3 Abstracts
- 18:57, 4 January 2010 diff hist +128 Abstracts
- 18:44, 4 January 2010 diff hist +81 Abstracts
- 18:41, 4 January 2010 diff hist +71 What to do about large-scale papers
- 18:41, 4 January 2010 diff hist +57 N What to do about large-scale papers New page: Previously defined as papers that study 50 or more genes.
- 18:40, 4 January 2010 diff hist +90 Associating genes with papers
- 18:34, 4 January 2010 diff hist +40 Associating genes with papers
- 18:33, 4 January 2010 diff hist +21 Abstracts
- 18:31, 4 January 2010 diff hist +1 Associating genes with papers
- 18:31, 4 January 2010 diff hist +109 Associating genes with papers
- 18:28, 4 January 2010 diff hist +1 Abstracts
- 18:27, 4 January 2010 diff hist +42 Abstracts
- 18:27, 4 January 2010 diff hist 0 Associating genes with papers
- 18:27, 4 January 2010 diff hist +28 Associating genes with papers
- 18:26, 4 January 2010 diff hist +43 Associating genes with papers
- 18:26, 4 January 2010 diff hist +2 Abstracts
- 18:26, 4 January 2010 diff hist +321 Abstracts
- 18:20, 4 January 2010 diff hist +157 N Abstracts New page: Currently, genes or proteins mentioned in the abstracts get associated with papers. (This was not always the case.) Are abstracts enough? Here's the data:
- 18:16, 4 January 2010 diff hist +307 N Associating genes with papers New page: Several possible strategies to test, may differ for sectioned vs non-sectioned papers: #Abstracts #Gene frequency #Genes in Results (or equivalent) #[[Gene frequency in Result...
- 18:13, 4 January 2010 diff hist +35 Paper Pipeline
- 13:00, 23 December 2009 diff hist +54 Paper Pipeline
- 14:57, 21 December 2009 diff hist +104 Adding Papers not in PubMed
- 14:45, 21 December 2009 diff hist +134 Adding Papers not in PubMed
- 14:26, 21 December 2009 diff hist +35 Adding Papers not in PubMed
- 14:05, 21 December 2009 diff hist +21 Adding Papers not in PubMed
- 13:56, 21 December 2009 diff hist +100 Adding Papers not in PubMed
- 13:30, 21 December 2009 diff hist +1,123 N Adding Papers not in PubMed New page: New paper information can be entered through the paper editor, but you have to create the paper (i.e. get a WBPaper ID) through postgres first. To do this, you will need to login to tazen...
- 13:21, 21 December 2009 diff hist +33 Paper Pipeline
- 14:26, 16 December 2009 diff hist -14 Primary data Tag
- 14:26, 16 December 2009 diff hist -2 Primary data Tag
- 14:26, 16 December 2009 diff hist +95 Primary data Tag
- 14:25, 16 December 2009 diff hist +28 Primary data Tag
- 14:24, 16 December 2009 diff hist +214 Primary data Tag
- 14:16, 16 December 2009 diff hist +200 N Primary data Tag New page: Paper Types that will get Primary Data Tag: Paper Types that will get No Primary Data Tag: Paper Types that will get Not Designated Tag: Back to [[New Paper Model - Model and Changes t...
- 14:14, 16 December 2009 diff hist +22 New Paper Model - Model and Changes to Pipeline
- 13:38, 16 December 2009 diff hist +337 Project meeting agendas and minutes