User contributions
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Jump to navigationJump to search- 03:21, 24 September 2007 diff hist +1 Data mining:WormMart:Example 3 →Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases.
- 03:20, 24 September 2007 diff hist +15,806 N Data mining:WormMart:Example 3 New page: === Download the set of all RNAi experiments that resulted in an embryonic lethal (Emb) phenotype, and in which the target genes are classified as serine/threonine kinases. === * Start a ...
- 03:19, 24 September 2007 diff hist +11,498 N Data mining:WormMart:Example 2 New page: === Example 2: From all genes in C.elegans that have an ortholog in C. briggsae, are located in chromosome III, have an observed larval lethal phenotype in an RNAi screen, and have annotat...
- 03:17, 24 September 2007 diff hist -4 Data mining:WormMart:Example 1 →Example 1: List all synonyms for the following genes; bli-1, egl-43, lag-1
- 03:16, 24 September 2007 diff hist +8,427 N Data mining:WormMart:Example 1 New page: === Example 1: List all synonyms for the following genes; bli-1, egl-43, lag-1 === * Start a new WormMart query: [http://www.wormbase.org/biomart/martview [HERE]]. * On the '''START''' p...
- 03:15, 24 September 2007 diff hist 0 Data mining:WormMart
- 03:15, 24 September 2007 diff hist +1,633 N Data mining:WormMart New page: == Introduction == WormMart (http://www.wormbase.org/BioMart/martview) provides easy and interactive access to data en masse. In particular, WormMart enables users to retrieve sequences a...
- 03:13, 24 September 2007 diff hist +805 N Data mining:AQL tutorial New page: AQL search [http://www.wormbase.org/db/searches/aql_query [1]] is strictly dependent on current database models: one must consult the models to construct a successful query. '''Documentat...
- 03:10, 24 September 2007 diff hist +5,299 N GFF2 features New page: This page describes genomic annotations found in WormBase's GFF2 genome feature tables. {| cellspacing="4" | ALLELE:. | 14814 |- | cDNA_match:BLAT_mRNA_BEST | 24512 |- | cDNA_match:BLAT_m...
- 03:09, 24 September 2007 diff hist +1,744 N AceDB classes tutorial New page: The following table lists common WormBase classes. {| border="1" |- class="datatitle" ! Object ! Name ! Class ! Notes |- class="databody" ! A Predicted Gene | A cosmid dot name, such as F...
- 03:01, 24 September 2007 diff hist +358 N SOPs New page: == Internal Documentation == This page provides an area to collect standard operating procedures for each of the WormBase centers. * [[Project-wide_documentation|Project-wide documentati...
- 02:52, 24 September 2007 diff hist +2 Main Page
- 02:51, 24 September 2007 diff hist +4,000 N Wiki objectives and usage guidelines New page: == About the WormBase Wiki == This document describes the objectives and usage guidelines of the WormBase Wiki. Wikis are community-driven, collaborative websites. Users may freely post ... current
- 02:50, 24 September 2007 diff hist +2 Main Page
- 02:45, 24 September 2007 diff hist +1,968 N AceDB classes New page: This is a list of the most prominent classes in use in the AceDB database employed by WormBase. To display the current model of any class, include the following text in your documentation...
- 02:31, 24 September 2007 diff hist +1,169 N Data mining New page: == Data Model == # About the WormBase data model - ''how data is stored and structured at WormBase'' # AceDB classes - ''A comprehensiv...
- 02:28, 24 September 2007 diff hist +1,866 N RSS news feeds New page: == About RSS feeds at WormBase == WormBase news feeds (using the RSS format) provide a convenient mechanism for staying up-to-date with new datasets, features, and system status. Browsers...
- 02:26, 24 September 2007 diff hist +2,123 N Mailing lists New page: == Public Mailing Lists == WormBase maintains four public/semi-public mailing lists: '''wormbase-announce@wormbase.org''' Announcements of general interest to the community, including a...
- 02:25, 24 September 2007 diff hist +62,608 N Former How To Build A WormBase Mirror New page: = Hardware requirements = WormBase runs on a Unix or Linux system (with the caveat that Mac OS X is, essentially, a Unix system). A relatively fast system with generous memory is strongly...
- 02:19, 24 September 2007 diff hist +12,620 N Virtual Machines New page: = Overview = "Virtual Machines" (or VMX) are self-contained packages of everything you need to use WormBase locally. To keep downloads small, we've split virtual machines into two compone...
- 02:16, 24 September 2007 diff hist +1,796 N Local installation of WormBase New page: Imagine being able to run WormBase on your own local computer, unencumbered from server load at www.wormbase.org, network latency, or even the need for a network connection. Run BLAST sear...
- 02:05, 24 September 2007 diff hist +48 N Gene Prediction New page: This page has been moved. Please see: NGASP current
- 01:00, 24 September 2007 diff hist +40 Main Page →Community Resources
- 00:59, 24 September 2007 diff hist +3,761 N Job Openings New page: '''Please place job postings on the Worm Community Forum at ''' http://www.wormbase.org/forums/ Note: you need to register again at the Forum. ---- ''' Old submissions ''' ---- 11. ...
- 00:45, 24 September 2007 diff hist +1,721 N Citing WormBase New page: Please cite WormBase as follows: WormBase web site, http://www.wormbase.org, release WSXX, date XXX. Use the current WS release number and release date in your citation. This informatio...
- 00:40, 24 September 2007 diff hist +2 FAQs →TEMPLATE
- 00:39, 24 September 2007 diff hist +8,128 N FAQs New page: __NOTOC__ '''Contents:''' #top - 0-9 A B C D E F G H I J K L M N O [[...
- 00:31, 24 September 2007 diff hist +23 Main Page →Using WormBase
- 00:29, 24 September 2007 diff hist +56 Glossary of terms
- 00:28, 24 September 2007 diff hist +56 Glossary of terms
- 00:27, 24 September 2007 diff hist +13 Glossary of terms
- 00:25, 24 September 2007 diff hist -96 Glossary of terms
- 00:22, 24 September 2007 diff hist +8,107 N Glossary of terms New page: '''Contents:''' [#top Top] - [#0.E2.80.939 0–9] [#A A] [#B B] [#C C] [#D D] [#E E] [#F F] [#G G] [#H H] [#I I] [#J J] [#K K] [#L L] [#M M] [#N N] [#O O] [#P P] [#Q Q] [#R R] [#S S] [...
- 22:12, 23 September 2007 diff hist +7,619 N UserGuide:Blast Search New page: OVERVIEW: http://www.wormbase.org/wiki/images/I_blast1.jpg BLAST is a method for searching either protein or DNA databases with either a protein or a DNA query sequence. Positive matches ...
- 22:08, 23 September 2007 diff hist +5,791 N UserGuide:Browse Genome New page: Browse Genome OVERVIEW You have a sequence that you want to work on -- a predicted gene, a cDNA, an STS marker -- or a sequence about which you have some descriptive traits. You want to e...
- 22:04, 23 September 2007 diff hist +2,278 N UserGuide:Simple Search New page: A simple search allows users to search WormBase for keywords contained in the database objects. The search can be broad (Anything) or can be restricted by searching for: 1) a particular ob...
- 21:57, 23 September 2007 diff hist +81 UserGuide:Release Notes
- 21:54, 23 September 2007 diff hist +1,216 N UserGuide:Release Notes New page: How can users find out what is new in each WormBase release? Actually all the information is in the notes for each new WS release, which can be directly accessed from the WormBase homepage...
- 21:52, 23 September 2007 diff hist +2,835 N UserGuide:General Description New page: An Overview of The WormBase Homepage GENERAL DOCUMENTATION CAVEAT: ALWAYS UNDER CONSTRUCTION At this writing, Wormbase is very much a dynamic, ongoing project. A good consequence of...
- 21:50, 23 September 2007 diff hist -511 User Guide
- 21:44, 23 September 2007 diff hist +2,793 N User Guide New page: GENERAL DOCUMENTATION CAVEAT: ALWAYS UNDER CONSTRUCTION At this writing, Wormbase is very much a dynamic, ongoing project. A good consequence of this is that new features and options are...
- 21:41, 23 September 2007 diff hist -1,693 WormBaseComparativeGenomicsTools
- 21:40, 23 September 2007 diff hist +6,147 N WormBaseComparativeGenomicsTools New page: * [#Genomic_Alignments <span class="tocnumber">1</span> <span class="toctext">Genomic Alignments</span>] ** [#Methods <span class="tocnumber">1.1</span> <span class="toctext">Methods</span...
- 21:39, 23 September 2007 diff hist 0 Other nematodes
- 21:39, 23 September 2007 diff hist +1,470 N Other nematodes New page: * '''Wikionchus''', a wiki for the Diplogastrid ''Pristionchus pacificus''<nowiki>: </nowiki>[http://www.pristionchus.org/wikionchus/index.php/Main_Page [1]] * '''WormBook section - [http:...
- 21:36, 23 September 2007 diff hist +7,777 N WS179 New page: = Release Notes = <nowiki> New release of WormBase WS179, Wormpep179 and Wormrna179 Mon Jul 30 12:21:01 BST 2007 WS179 was built by [Paul] ========================================...
- 21:36, 23 September 2007 diff hist +6,834 N WS178 New page: == Release Notes == <nowiki> New release of WormBase WS178, Wormpep178 and Wormrna178 Wed Jul 4 12:56:45 BST 2007 WS178 was built by Gary Williams ===============================...
- 21:35, 23 September 2007 diff hist +8,846 N WS177 New page: == Release Notes == <nowiki> New release of WormBase WS177, Wormpep177 and Wormrna177 Fri Jun 15 15:39:40 BST 2007 WS177 was built by Michael Han =================================...
- 21:34, 23 September 2007 diff hist +1 WS176
- 21:34, 23 September 2007 diff hist -1 WS176