Search results
From WormBaseWiki
Jump to navigationJump to searchCreate the page "Database" on this wiki! See also the search results found.
Page title matches
- 3 KB (417 words) - 17:50, 16 August 2010
- // Database class. This is to be used in the construction of cgi URLs // an RNAi object would have a Database connection . .1 KB (116 words) - 09:36, 4 October 2010
- The majority of the data stored within WormBase is held in an ACeDb database. Objects within the database are defined centrally in a file called [http://cvs.sanger.ac.uk/cgi-bin/vie2 KB (379 words) - 22:06, 10 October 2013
- databases (multiple instances of the same database in some cases). Should be fault tolerant if a server or database crashes.6 KB (980 words) - 18:48, 11 August 2010
- 700 bytes (98 words) - 09:44, 4 October 2010
- ...mbase.org/wiki/index.php/Image:Fig_1_8_01.png). For a search of the entire database, click the Search link after selecting Anything in the "Search for" pull-do ...nversely, if there are too many results, select a restricted subset of the database for the search from the "Search for" pull-down menu (e.g., "Any Gene"; (htt3 KB (545 words) - 19:56, 11 August 2010
Page text matches
- // Database class. This is to be used in the construction of cgi URLs // an RNAi object would have a Database connection . .1 KB (116 words) - 09:36, 4 October 2010
- 1) Wash U have significantly change their database processing pipeline. *Wash U switching how they build their database, to be similar to EBI386 bytes (57 words) - 14:18, 6 March 2012
- Briggsae GFF database based on CB3 assembly (SM) Archiving legacy CB25 database == New database directory structure ==374 bytes (50 words) - 18:52, 11 August 2010
- Article_URL UNIQUE ?Database UNIQUE ?Database_field UNIQUE ?Accession_number Journal_URL UNIQUE ?Database1 KB (95 words) - 21:28, 6 December 2010
- == 4. Define/resolve Clustalw database problems (all; 10 minutes)==301 bytes (31 words) - 09:39, 1 July 2009
- ?Library DB_info Database ?Database ?Database_field UNIQUE ?Accession_number ...Sequence // Should we store vector sequences in the database?930 bytes (84 words) - 14:02, 4 October 2010
- == 2. Database Connectivity overview (Xiaoqi; 10 minutes) == * update on database connectivity1 KB (141 words) - 17:51, 24 February 2010
- =Stanford Microarray Database (SMD)= *[http://smd.stanford.edu/search.shtml Stanford Microarray Database (SMD) search page]476 bytes (62 words) - 21:35, 29 November 2010
- // a database name and a database field/qualifier to help clarify, e.g. // Database TREMBL TrEMBL_AC Q9N2U81 KB (141 words) - 10:05, 15 November 2011
- == Database migration ==687 bytes (91 words) - 21:32, 1 March 2016
- === Database Connectivity (Xiaoqi; 10 minutes) ===907 bytes (113 words) - 14:27, 19 February 2010
- DB_info Database ?Database ?Database_field ?Accession_number XREF Homology_group DB_info Database ?Database ?Database_field ?Accession_number XREF Homology_group2 KB (193 words) - 11:11, 23 May 2011
- == User session database strategy == * We will leave the user database as-is and not overload with additional columns860 bytes (117 words) - 14:58, 19 August 2014
- * Preparation of C. briggsae database to re-start curation === Database migration ===1 KB (175 words) - 10:58, 19 June 2015
- * will provide a persistent database connection * WB API register Service(database) modules and pass the returning hashref to Object modules767 bytes (107 words) - 16:30, 17 March 2010
- DB_annotation ?Database UNIQUE ?LongText > DB_annotation ?Database UNIQUE ?LongText3 KB (354 words) - 11:08, 3 December 2010
- ?Analysis DB_info Database ?Database ?Database_field ?Accession_number1 KB (104 words) - 10:38, 10 August 2010
- build a user database for enabling greater customizability. 2. User preferences will be stored in a back-end database...3 KB (354 words) - 16:55, 4 November 2010
- ...B_text", and "Web_location" still in use? If so can data be propagated to ?Database?166 bytes (25 words) - 15:02, 5 March 2011
- # database properties # # Access to the postgres database to build into and access from the webapp3 KB (361 words) - 17:56, 14 August 2013
- Test and move the new database filesystem structure into production221 bytes (28 words) - 18:52, 11 August 2010
- == Database migration ==1 KB (161 words) - 14:29, 3 June 2014
- ...ton. All C. elegans clone, sequence and genes are now merged into a single database. * OICR will write NAR paper this year for the Database issue.2 KB (232 words) - 09:58, 2 August 2013
- == 4. Database MIgration ==1 KB (176 words) - 20:42, 3 May 2016
- DB_info Database ?Database ?Database_field ?Accession_number XREF 3d_data2 KB (133 words) - 09:56, 10 August 2010
- According to the WormBase calendar it is a "Database Migration Group" call.232 bytes (28 words) - 13:49, 19 June 2014
- === Create an empty target WormMart database === $ mysql> create database wormmart_${WB_RELEASE};2 KB (289 words) - 18:24, 17 August 2010
- == Session / User database == Session and user management uses a single database (wormbase_users). It is comprised of the following tables:955 bytes (120 words) - 22:36, 16 August 2010
- DB_info Database ?Database ?Database_field ?Accession_number Text //For Darin genbank genpep ids Database ?Database ?Database_field ?Accession_number3 KB (306 words) - 10:00, 26 October 2011
- == Database migration == #**Will create a WS252 DynamoDB database In order to make sure the reorganized code still works and to make sure the3 KB (478 words) - 15:41, 23 February 2016
- ==database URL/URIs== **website flat file only with only database name and description stored in acedb2 KB (361 words) - 16:32, 17 October 2013
- DB_info Database ?Database ?Database_field ?Accession_number XREF Structure_data // Database_field: Na2 KB (192 words) - 09:45, 5 October 2010
- Pathway DB_info Database ?Database_field ?Accession_number //Can be used for any pathway db with uni Pathway DB_info Database ?Database ?Database_field ?Accession_number //Can be used for any pathway db with uni3 KB (275 words) - 01:07, 6 February 2014
- DB_info Database ?Database ?Database_field UNIQUE ?Accession_number // the various SRA and GEO IDs for Run Text ?Database ?Database_field UNIQUE ?Accession_number // the accession of the3 KB (252 words) - 16:46, 9 January 2014
- == Using RSS feeds to stay up-to-date with specific database entries == ...Base now offers the ability to stay up-to-date with favorite genes (or any database object) using RSS.2 KB (390 words) - 08:28, 13 June 2012
- * Aggregator has to be associated with the database conf, not GBrowse.conf * TH: Where will the database live? Do we need to host?1 KB (195 words) - 09:38, 1 July 2009
- ** Using the database on localhost. ** Tested using the production database.736 bytes (92 words) - 21:20, 7 March 2012
- ...art tools are then used to add user interface configuration details to the database. Building the WormBase BioMart Database6 KB (786 words) - 19:13, 18 June 2014
- #[[Design Specs: Database Connectivity|Database Connectivity]] -- ''Xiaoqi''1 KB (144 words) - 20:32, 28 January 2011
- Database ?Database ?Database_field UNIQUE ?Accession_number XREF Pseudogene3 KB (223 words) - 09:22, 10 August 2010
- Article_URL UNIQUE ?Database UNIQUE ?Database_field UNIQUE ?Accession_number Journal_URL UNIQUE ?Database3 KB (320 words) - 10:55, 10 December 2010
- Database Text // database used to search for matches2 KB (184 words) - 08:38, 17 August 2010
- ...atures will be migrated into production along with each new release of the database. New features will NOT be migrated into production in the middle of a relea May 4th: New build of the database released by Sanger (eg WS100)4 KB (628 words) - 14:32, 8 February 2010
- The Wormbase geographic map displays depend on a database named "geo_map". The code base for creating a new geo_map database:4 KB (711 words) - 23:25, 13 August 2010
- ...re loaded and organized in different tables. At the moment of building the database, InterMine code takes information from guiding files that indicate relation1 KB (209 words) - 03:18, 13 November 2018
- ...sed notification system to easily track changes to any given object in the database. Since our databases are build-use-discard, the RSS system requires a database to track changes over time. Here's how it works.4 KB (585 words) - 18:33, 16 August 2010
- with the exception of the maize database, it doesn't yet seem that author participation is the database3 KB (564 words) - 19:15, 10 August 2010
- DB_info Database ?Database ?Database_field UNIQUE ?Accession_number XREF Motif // ID Accession_number2 KB (200 words) - 15:32, 4 October 2010
- ...e from the Gene pages (link is called syntenic alignment). Or in the ACeDB database as Homol_data on the C.elegans and C.briggsae chromosomes. ...ase/data/compara_176.tar.bz2 WS176 based dumps]] containing 4 ensembl-core database + 2 ensembl-compara databases (1 compara-multiplealignment / 1 compara-orth5 KB (727 words) - 17:31, 27 June 2009
- * Open conversation about database migration. Specific actions:501 bytes (67 words) - 18:39, 8 October 2018
- ...in addition to a description of the database. OR the description about the database should be italicized or downplayed a bit more so it is easier to tell that1 KB (175 words) - 00:44, 27 August 2015
- aceserver.cshl.org always hosts an up-to-date copy of the database and the software that drives WormBase. In addition, the underlying database ...ot provide adequate speed for your needs, you may download and install the database locally. For additional help, please contact help@wormbase.org.2 KB (301 words) - 02:21, 1 April 2012
- This project is broken down into three main sections: central database, curation, and website. To use Datomic/DynamoDB as a centralized database system for the WormBase project5 KB (842 words) - 19:41, 17 February 2016
- DB_info Database ?Database ?Database_field ?Text //links molecule to ChEBI, CTD, KEGG, UniProt DB_info Database ?Database ?Database_field ?Text //links molecule to ChEBI, CTD, KEGG, etc6 KB (543 words) - 23:29, 15 March 2016
- ...ief [[WormBase_database_build_overview]], outlining the main stages of the database construction640 bytes (97 words) - 22:32, 16 August 2010
- ...mbase.org/wiki/index.php/Image:Fig_1_8_01.png). For a search of the entire database, click the Search link after selecting Anything in the "Search for" pull-do ...nversely, if there are too many results, select a restricted subset of the database for the search from the "Search for" pull-down menu (e.g., "Any Gene"; (htt3 KB (545 words) - 19:56, 11 August 2010
- ** first create database database_name > CREATE DATABASE database_name;2 KB (370 words) - 22:56, 10 August 2010
- *?Database **Needed a Database object for Gene Ontology Consortium for GO_REFs1 KB (199 words) - 19:08, 10 February 2014
- == 4. Discuss pre-prepared mysql database progress (Norie; 5 minutes) ==1 KB (174 words) - 20:43, 11 August 2010
- Database ?Database ?Database_field ?Text GO_reference ?Database ?Database_field ?Text3 KB (337 words) - 16:15, 19 February 2015
- i) database.WS185.*.tar.gz - compressed data for new release ...models.wrm.WS185 - the latest database schema (also in above database files)6 KB (680 words) - 07:37, 11 January 2008
- ...ould we be creating new papers at the alliance first or in the WB curation database and then importing them in.1 KB (229 words) - 16:05, 15 July 2021
- *[http://www.gmod.org Generic Model Organism Database Project (GMOD)] *[http://www.acedb.org ACeDB] - ''The database engine that drives WormBase''2 KB (284 words) - 22:43, 16 August 2010
- ...earch.JPG]), and the search results (sentences) are stored in the back end database. <span style="mso-spacerun: yes"></span>These sentences can be retrieved b ...he <span class="SpellE">datatype</span> can be deposited into the tracking database.<span style="mso-spacerun: yes"></span><span style="mso-spacerun: yes"></sp4 KB (573 words) - 23:46, 13 August 2010
- i) database.WS186.*.tar.gz - compressed data for new release ...models.wrm.WS186 - the latest database schema (also in above database files)6 KB (683 words) - 05:51, 3 April 2008
- ...we put a tracking system in place to track subscribed lab heads/PIs in the database? * recruiting for the Datomic database position is making good progress1 KB (207 words) - 09:45, 22 January 2016
- === 1a. Is the mysql database issue resolved? === ''Specifically the use of full database names (and not symbolic names), also manifested in the discord between the2 KB (370 words) - 15:21, 11 October 2013
- == Database migration ==431 bytes (50 words) - 14:14, 8 March 2016
- *[http://www.gmod.org Generic Model Organism Database project]759 bytes (106 words) - 21:19, 4 November 2011
- == Genetomic / curation database ==2 KB (296 words) - 01:51, 5 September 2015
- ** Arek has dedicated existing mysql database and loads of capacity Database server with NFS2 KB (315 words) - 10:49, 3 June 2009
- == Database migration ==228 bytes (19 words) - 08:50, 15 March 2016
- WormBase is the major public biological database for the nematode ''Caenorhabditis elegans'' (Chen et al., 2005). It is mean ...vailable in September, 2005 (WS147 release; BioPerl/Generic Model Organism Database software).2 KB (365 words) - 00:06, 1 December 2010
- === Database Connectivity ===2 KB (280 words) - 19:14, 10 August 2010
- ...th other lists. WormMine lists can accept most types of IDs present in the database, and they can be created from multiple types of IDs at the same time (i.e. You can select the list type (from all the types of items in the database) and organism (majority of items are ''C. elegans''). Enter or paste the id3 KB (453 words) - 19:49, 13 November 2018
- ...o be dumped from AceDB and loaded to MySQL. Finally, the data in the MySQL database needs to be processed to be used by N-Browse. *If you need to change the MySQL database or server that the application runs on, the following parameters need to be7 KB (1,133 words) - 17:52, 16 August 2010
- i) database.WS184.*.tar.gz - compressed data for new release ...models.wrm.WS184 - the latest database schema (also in above database files)7 KB (831 words) - 07:36, 11 January 2008
- This is a list of the most prominent classes in use in the AceDB database employed by WormBase. * [[WormBase Model:Database|Database]]4 KB (568 words) - 11:06, 23 May 2011
- ...WormBase software. These freezes, occuring with every tenth release of the database, are permanently archived at wsXXX.wormbase.org. They can be cited using th2 KB (304 words) - 21:19, 5 July 2011
- | Push database1 KB (153 words) - 14:07, 22 March 2008
- The topic this week is 'database future'526 bytes (87 words) - 16:01, 18 March 2014
- - Although no major changes, like a new database, were decided a large number of small decisions were made that will signifi690 bytes (95 words) - 15:59, 21 December 2017
- databases (multiple instances of the same database in some cases). Should be fault tolerant if a server or database crashes.6 KB (980 words) - 18:48, 11 August 2010
- i) database.WS183.*.tar.gz - compressed data for new release ...models.wrm.WS183 - the latest database schema (also in above database files)7 KB (800 words) - 10:01, 8 November 2007
- Online database of behavioral and structural anatomy of C. elegans: [http://www.wormatlas.o556 bytes (74 words) - 19:17, 10 August 2010
- DB_info Database ?Database ?Database_field UNIQUE ?Accession_number XREF Protein2 KB (305 words) - 08:49, 5 October 2010
- ...e ?Database_field ?Accession_number //used for storing PubMed or other database identifiers, for PubMed, Database_field would be PMID5 KB (471 words) - 16:07, 4 October 2010
- DB_INFO ?Database ?Database_field Text #added Oct2013 DR *''Pgdbid'' -- no table -- postgres database ID, generates automatically upon entry.5 KB (814 words) - 18:48, 17 September 2018
- ...atures will be migrated into production along with each new release of the database. New features will NOT be migrated into production in the middle of a relea May 4th: New build of the database released by Sanger (eg WS100)4 KB (600 words) - 14:55, 10 June 2014
- ...f gene (and possibly protein) names they have in their database, mapped to database gene IDs, but variations on gene and protein names can still appear in the *Get a mappings file from the MOD or database that maps each database ID to a list of gene or protein names and synonyms5 KB (857 words) - 23:28, 23 August 2011
- | Is the database running and providing the correct version number? | Update CLUSTAL database3 KB (489 words) - 18:14, 17 August 2010
- === Database migration === === Database migration ===5 KB (741 words) - 10:57, 21 August 2015
- Pathway DB_info Database ?Database ?Database_field ?Accession_number2 KB (260 words) - 11:11, 27 July 2012
- ;item 2 - Database Display Changes For Interactions ;item 2 - Database Display Changes For Interactions3 KB (475 words) - 22:50, 17 December 2010
- Network access to the ''C. elegans'' database is available at the following site:711 bytes (108 words) - 11:13, 5 January 2011
- DB_info Database ?Database ?Database_field ?Text //used for storing ORCID IDs etc. DB_INFO ?Database ?Database_field Text7 KB (881 words) - 15:46, 21 November 2013
- ..._WormBase_with_Bio::DB::GFF Bio::DB::GFF]]. Following the release of a new database from our team at the Wellcome Trust Sanger Institute, some additional post- ...se Schedule|Release schedule]] for any last minute bugs or issues with the database.8 KB (1,219 words) - 22:33, 24 October 2011
- Note: the related user history information will also be deleted from database automatically during this cleanup899 bytes (120 words) - 19:50, 1 February 2011
- 1) Is it possible to upload papers to textpresso as we get them into the database each week? For new paper curation it would be good to get papers when publi633 bytes (113 words) - 17:29, 19 April 2011
- *the Database line is a broken model issue, I have fixed it for WS233 models. Pathway DB_info Database ?Database ?Database_field ?Accession_number4 KB (503 words) - 00:51, 7 November 2013
- *** Database ?Database ?Database_field ?Text ** Corrections made in our Caltech postgres curation database now - how quickly can we get them to the Alliance?3 KB (492 words) - 18:48, 17 March 2021
- | Push database1 KB (144 words) - 18:22, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database3 KB (530 words) - 18:14, 17 August 2010
- ...nomenclature we should adopt for ?Analysis/?Condition objects in the AceDB database. Would be good to add Database connections to ?Condition or ?Analysis so that accessions can be added to t2 KB (340 words) - 08:50, 24 September 2010
- Database ?Database ?Database_field UNIQUE ?Text4 KB (350 words) - 09:32, 17 June 2013
- The BioPerl library provides a simple relational schema and database access layer for querying genomic features. This is the access method of ch ...al database. Currently WormBase does not provide world access to the MySQL database of genome features (although this may change in the future). You must:11 KB (1,663 words) - 17:45, 16 August 2010
- == New Database System == * PS - what is happening with the database discussions?4 KB (645 words) - 08:57, 27 August 2014
- Clicking outside of the box will then add the new author data to the database.588 bytes (110 words) - 18:55, 3 March 2011
- DB_info Database ?Database ?Database_field ?Accession_number //to link out to Phenobank ar2 02-DEC-053 KB (312 words) - 15:14, 15 July 2010
- The majority of the data stored within WormBase is held in an ACeDb database. Objects within the database are defined centrally in a file called [http://cvs.sanger.ac.uk/cgi-bin/vie2 KB (379 words) - 22:06, 10 October 2013
- Database ?Database ?Database_field ?Accession_number5 KB (484 words) - 10:42, 10 August 2010
- Database ?Database ?Database_field ?Accession ...E Sequence UNIQUE ?Sequence XREF Allele //Data removed from the primary database8 KB (1,073 words) - 15:31, 14 December 2012
- ...to a region of biological sequence.", and we can now curate those into the database.925 bytes (145 words) - 14:56, 18 February 2021
- 1) Here is advance notice that I added a new Database in WS173 Database : "NemaGENETAG_Consortium" Name "NemaGENETAG_Consortium" Description "N858 bytes (129 words) - 18:52, 11 August 2010
- ...w.wormbase.org/db/searches/aql_query [1]] is strictly dependent on current database models: one must consult the models to construct a successful query.834 bytes (137 words) - 15:09, 16 June 2011
- ...are they in the GO database somewhere? They need to be updated in the GO database.) ...elsif ($with =~ m/^UniProtKB:(\w+)/) { print ACE qq(Database\t"UniProt"\t"UniProtAcc"\t"$1"\n); }11 KB (1,439 words) - 22:10, 5 November 2018
- * Curateable data sets in the database819 bytes (130 words) - 10:04, 9 November 2010
- DB_info Database ?Database ?Database_field UNIQUE ?Accession_number XREF CDS4 KB (410 words) - 17:08, 17 August 2010
- * fixed a corruption in the Brugia database663 bytes (98 words) - 11:43, 25 January 2019
- *Do we need to change the Database name in AceDB? No **IDs are stored in AceDB without the prefix, but with the Database name OMIM3 KB (525 words) - 17:20, 4 April 2024
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (717 words) - 18:20, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (719 words) - 18:21, 17 August 2010
- *** database migration ** 09.30 Overview of database production - Kevin Howe3 KB (438 words) - 07:19, 6 October 2014
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (738 words) - 18:20, 17 August 2010
- The EMBL database accession number for lev-9 cDNA is FN433774.1 KB (193 words) - 18:58, 10 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (723 words) - 18:21, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (723 words) - 18:21, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (725 words) - 18:20, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (725 words) - 18:21, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (610 words) - 18:20, 17 August 2010
- ...erwise use this logo in any format in connection with the linking between [DATABASE NAME] and ScienceDirect. [DATABASE NAME]"3 KB (427 words) - 18:31, 3 October 2013
- ...e journals. Until the correction is manually curated and removed from the database, it will have a PMID. Once removed, that corresponding PMID is no longer v ...d a valid PMID in PubMed, but for some reason were removed from the PubMed database. In one case, it looks like the paper is actually a meeting abstract, so m3 KB (444 words) - 23:42, 13 August 2010
- == AceDB database == Copy the appropriate AceDB database to:8 KB (1,087 words) - 17:35, 19 June 2014
- ...the Phenotype2GO-based annotations are incorporated into WB as part of the database build. ...the InterPro2GO (IEA) annotations are incorporated into WB as part of the database build.3 KB (495 words) - 15:15, 24 August 2012
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (735 words) - 18:22, 17 August 2010
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (735 words) - 18:22, 17 August 2010
- * Common curation database: Currently AGR has no commitment to a common back end database2 KB (376 words) - 16:20, 10 July 2017
- ***Robust back-end infrastructure with internal Textpresso database holding all annotations ****Adapt data models and tables from postgres curation database on tazendra?6 KB (901 words) - 19:21, 29 November 2011
- ...d be created on the primary production server with each new release of the database. Currently, I run the sitemap script once a day under cron. 1. Create a list of URLs of the most common objects in the database4 KB (553 words) - 17:31, 19 June 2014
- Database ?Database ?Database_field ?Accession (XREF ?Class Tag)3 KB (475 words) - 14:53, 19 February 2013
- '''1600 - 1645''' Database issues (Anthony) - Web database builds3 KB (357 words) - 20:30, 6 June 2014
- === DataBase call === * Demo off one database for advisory board meeting.6 KB (974 words) - 17:28, 3 September 2014
- * all database connection errors will have the hostname appended874 bytes (125 words) - 20:59, 12 November 2013
- * Each entity links back to host/parent database *Every entity that comes up will link back to the host database. Some of the data is presenting associations between gene and diseases (Fly3 KB (421 words) - 16:39, 20 October 2016
- You may redistribute this program and database subject to the // Database directory: /usr/local/wormbase/acedb/wormbase9 KB (947 words) - 18:27, 12 August 2014
- * Database Future Mtg report === Database Meeting Summary ===8 KB (1,218 words) - 17:46, 2 April 2014
- WormBase Virtual Machines are created for each release of the database. This process is almost entirely scripted, created from base virtual machi ...erence between the core machine and a production server is the location of database directories. On live nodes, the databases are maintained on the local file5 KB (752 words) - 23:33, 13 August 2010
- tace: status -database1 KB (169 words) - 16:51, 28 May 2013
- | Is the database running and providing the correct version number? | Update CLUSTAL database4 KB (762 words) - 18:20, 17 August 2010
- * DB_info Database ?Database ?Database_field ?Accession_number XREF * DB_info Database ?Database ?Database_field ?Accession_number7 KB (1,220 words) - 15:50, 25 November 2011
- -- [[Design_Specs:_Database_Connectivity|Database Connectivity]]1 KB (163 words) - 17:51, 10 February 2010
- ...ses with either a protein or a DNA query sequence. Positive matches in the database to the query sequence are shown with an alignment of the positive to the qu ...that vary depending on the type of query (search) sequence and the type of database being searched:7 KB (1,234 words) - 18:25, 17 August 2010
- ...changes in the data model and extensive testing of the performance of the database, this does not change the way in which searching and querying for genes is4 KB (621 words) - 15:38, 24 September 2007
- -- rename as database history? check presentation options on sidebar listing -- call Database history? -- Try first3 KB (423 words) - 18:20, 14 February 2011
- This is the official wiki site for [http://www.wormbase.org WormBase], the database of the model organism [http://en.wikipedia.org/wiki/Caenorhabditis_elegans **[http://smd.stanford.edu/search.shtml Stanford Microarray Database (SMD) search page]5 KB (646 words) - 17:11, 25 November 2020
- This is the official wiki site for [http://www.wormbase.org WormBase], the database of the model organism [http://en.wikipedia.org/wiki/Caenorhabditis_elegans ...and datasets, to make feature requests, and to ask for assistance with the database.4 KB (507 words) - 08:46, 8 October 2014
- i) database.WS187.*.tar.gz - compressed data for new release ...models.wrm.WS187 - the latest database schema (also in above database files)6 KB (647 words) - 16:43, 21 December 2011
- ...thumb|Widget Loading]] we can see that data goes through 4 stages from the database to the UI - Rest, Conf, API and Template. Usually our work doesn't involve ....wormbase.org/resources/analysis/OMA#0312--10 OMA] page , you can view the database you are going to be working on by going to Tools -> Tree Display using the6 KB (907 words) - 18:45, 19 June 2014
- ...l to discuss this with Ranjana to see if there is a better solution at the database level to make the downstream work easier.1 KB (165 words) - 18:42, 15 August 2019
- i) database.WS112.*.tar.gz - compressed data for new release ...models.wrm.WS112 - the latest database schema (also in above database files)6 KB (735 words) - 11:17, 21 December 2011
- *[https://github.com/WormBase/website/issues/4626 Worm Community Forum: SMF Database Error!] -- ''resolved'' *EBI has set up a database and API for the web team to display this data3 KB (435 words) - 19:56, 4 March 2016
- * [wormbase-help] Metadata harvesting of WormBase database1 KB (184 words) - 18:13, 16 February 2023
- i) database.WS211.*.tar.gz - compressed data for new release ...models.wrm.WS211 - the latest database schema (also in above database files)6 KB (766 words) - 16:38, 21 December 2011
- ...t should be done to confirm data is correct prior to public release of the database from Sanger. Ideally, you should give a description, an acedb query and exp These are checks to compare what is in the database to what is in the GFF files These work by counting the number of lines in t7 KB (659 words) - 17:39, 17 August 2010
- ** looking at copying database991 bytes (135 words) - 14:55, 8 October 2013
- i) database.WS172.*.tar.gz - compressed data for new release ...models.wrm.WS172 - the latest database schema (also in above database files)7 KB (783 words) - 10:55, 21 December 2011
- ** Database migration * Should the email info come from ACEDB or local Caltech postgres database?5 KB (776 words) - 16:50, 7 January 2016
- This form represents a user-friendly interface to a postgres database table stored here at WormBase Caltech. ...ered into our database to be available in the next possible release of our database6 KB (1,017 words) - 19:34, 2 December 2011
- ...ons to diseases (DO terms) would then be made during the Postgres curation database dump. ** Build database pipeline scripts to add automatically inferred gene associations from varia5 KB (705 words) - 16:31, 16 June 2020
- i) database.WS206.*.tar.gz - compressed data for new release ...models.wrm.WS206 - the latest database schema (also in above database files)7 KB (796 words) - 16:46, 21 December 2011
- Pathway DB_info Database ?Database_field ?Accession_number //Can be used for any pathway db with uni2 KB (207 words) - 14:11, 4 March 2011
- i) database.WS175.*.tar.gz - compressed data for new release ...models.wrm.WS175 - the latest database schema (also in above database files)6 KB (680 words) - 10:54, 21 December 2011
- ...cial wiki guide for using [http://www.wormbase.org WormBase], a biological database of all genomic and genetic data of the model nematode ''Caenorhabditis eleg ...and datasets, to make feature requests, and to ask for assistance with the database.4 KB (613 words) - 09:23, 30 June 2011
- sudo adduser -M intermine // will be the user connecting to the mine database Set up postgresql users and create a database called "wormmine" accessible to a user called "intermine".9 KB (1,231 words) - 14:55, 19 June 2014
- ...access additional information about the latest WormBase release, go to the Database Reports heading to the left of the wormpep report and click on Current_Rele1 KB (215 words) - 18:31, 17 August 2010
- *BioGRID, Gene Orienteer, Interolog database, etc. *Interolog database5 KB (847 words) - 17:49, 1 March 2012
- UniProt: Official Protein Identifiers used by the UniProt database. TreeFam: Official gene identifiers used by the TreeFam database.6 KB (847 words) - 23:51, 9 May 2023
- i) database.WS135.*.tar.gz - compressed data for new release ...models.wrm.WS135 - the latest database schema (also in above database files)6 KB (689 words) - 11:19, 21 December 2011
- i) database.WS208.*.tar.gz - compressed data for new release ...models.wrm.WS208 - the latest database schema (also in above database files)5 KB (581 words) - 16:50, 21 December 2011
- i) database.WS160.*.tar.gz - compressed data for new release ...models.wrm.WS160 - the latest database schema (also in above database files)6 KB (706 words) - 10:50, 21 December 2011
- i) database.WS212.*.tar.gz - compressed data for new release ...models.wrm.WS212 - the latest database schema (also in above database files)5 KB (582 words) - 11:16, 21 December 2011
- ...one of the collaborating partners of the International Nucleotide Sequence Database Collaboration [http://www.insdc.org www.insdc.org]. We can then easily extr ...you are happy for your data to be publicly available from the ENA/GenBank database, then we will consider including it in WormBase, but we reserve the right t5 KB (723 words) - 09:02, 22 May 2012
- DB_info Database ?Database ?Database_field ?Accession_number DB_info Database ?Database ?Database_field ?Accession_number // Any database reference to the interaction outside of WormBase, e.g. BioGRID, Interactome12 KB (1,431 words) - 19:06, 20 March 2012
- i) database.WS196.*.tar.gz - compressed data for new release ...models.wrm.WS196 - the latest database schema (also in above database files)6 KB (748 words) - 16:41, 21 December 2011
- * Working on Haemonchus database1 KB (191 words) - 16:32, 30 September 2009
- ...e ?Database_field ?Accession_number //used for storing PubMed or other database identifiers, for10 KB (928 words) - 18:34, 2 May 2011
- ...n TierI/II and TierIII species. They have been working on indexing the GFF database. If users go to global search and type a gene name could see all species an ...eeds more consideration. Abby not opposed on having a separate TierIII ace database.4 KB (503 words) - 08:30, 22 June 2012
- i) database.WS192.*.tar.gz - compressed data for new release ...models.wrm.WS192 - the latest database schema (also in above database files)6 KB (763 words) - 10:43, 21 December 2011
- * made space on production and loaded build into its own database2 KB (222 words) - 15:42, 5 November 2013
- ** gff3 database?1 KB (183 words) - 14:57, 1 October 2013
- ...und the world. WormBase includes the abstracts from these meetings in our database.1 KB (201 words) - 16:34, 15 October 2012
- '''Expand database connectivity and make it more robust (Xq)'''2 KB (216 words) - 16:54, 31 March 2010
- ...some but not all examples, even after prefix are removed. Appears to be a database issue. Michael and Sibyl will work offline on this. ...? Is it possible? Maybe refreshed periodically, and Caltech can sync their database with the name server3 KB (529 words) - 18:26, 16 July 2020
- i) database.WS191.*.tar.gz - compressed data for new release ...models.wrm.WS191 - the latest database schema (also in above database files)6 KB (756 words) - 16:53, 21 December 2011
- * Database migration * Adam is making great progress in getting the Datomic database ready for driving the site.4 KB (684 words) - 19:43, 5 December 2015
- ...run complex database searches without having to use (or even know) complex database query languages.3 KB (545 words) - 19:45, 11 August 2010
- ...formed using either Affymetrix chips or chips from the Stanford Microarray Database. These data can be accessed from the Gene Summary Page for each individual1 KB (228 words) - 18:30, 17 August 2010
- *Daniela spoke with Mihail about getting pictures from their database *Linking to Yuji Kohara's database (NEXTDB)?4 KB (650 words) - 17:08, 1 September 2011
- ...h accents) and convert them to standard characters before reading into the database, since ACeDB doesn't allow special characters. *Articles can be read into the development database and checked using the paper editor on mangolassi.caltech.edu5 KB (761 words) - 21:04, 10 February 2012
- * Database handles using real names793 bytes (94 words) - 14:55, 13 September 2013
- ** WormBase worked off of aCeDB, an object database where modeling is easy for curators to do, and acedb handles XREFs and conn ...asy to adapt and expand, but none of the data relates to each other at the database level (no foreign keys, denormalized data)4 KB (743 words) - 12:22, 5 March 2021
- i) database.WS204.*.tar.gz - compressed data for new release ...models.wrm.WS204 - the latest database schema (also in above database files)6 KB (648 words) - 16:16, 21 December 2011
- i) database.WS176.*.tar.gz - compressed data for new release ...models.wrm.WS176 - the latest database schema (also in above database files)7 KB (783 words) - 10:46, 21 December 2011
- *We have frequent database dumps that can be read for stats *Personal accounts are encouraged so as to avoid saving changes to citpub database5 KB (850 words) - 15:32, 5 September 2013
- i) database.WS173.*.tar.gz - compressed data for new release ...models.wrm.WS173 - the latest database schema (also in above database files)6 KB (639 words) - 10:55, 21 December 2011
- * WS247 database will not be ready with enough time for Ranjana and James to incorporate int === WormBase PI meeting for database migration ===8 KB (1,120 words) - 16:19, 5 March 2015
- ...s plant-parasite to create a database of 14420 proteins. We have made this database, termed HapPep3, available from the Superfamily repository of model organis3 KB (462 words) - 16:11, 15 December 2011
- *Does CIT need to worry about consistency of gene IDs over database builds? *Cron-jobs/scrips used to update the database, but now requires manual manipulation4 KB (612 words) - 17:13, 1 December 2011
- ...mportant feature for curators. To understand more about ACeDB, the backend database of WormBase, please visit http://www.acedb.org.2 KB (266 words) - 18:26, 17 August 2010
- * MySQL database for nBrowse1 KB (227 words) - 18:00, 11 November 2009
- i) database.WS199.*.tar.gz - compressed data for new release ...models.wrm.WS199 - the latest database schema (also in above database files)6 KB (661 words) - 16:51, 21 December 2011
- * Should we change it so database info only comes in through Hinxton? ...the communication path for how the web team needs to be notified about new database URL links and what is the new technology for making these links to other we3 KB (452 words) - 17:48, 7 March 2013
- - Finished the NAR database paper for WB2 KB (260 words) - 15:45, 16 September 2009
- i) database.WS171.*.tar.gz - compressed data for new release ...models.wrm.WS171 - the latest database schema (also in above database files)6 KB (652 words) - 10:55, 21 December 2011
- ...proposed WormBase model for a new Class named 'Molecule' was added to the database. After several rounds of curation these molecules can be divided into two1 KB (209 words) - 19:57, 25 July 2012
- **Select the latest database and the '''RNAi''' dataset<br>2 KB (305 words) - 10:42, 31 January 2013
- : tied to a version of the database Push acedb into production via a tarball, a single unpacked acedb database directory, or all acedb/wormbase* directories.8 KB (1,229 words) - 16:17, 30 December 2013
- i) database.WS207.*.tar.gz - compressed data for new release ...models.wrm.WS207 - the latest database schema (also in above database files)6 KB (675 words) - 16:42, 21 December 2011
- ...dy exists; if not, can request a new strain ID to use in postgres curation database. **Ideally, we'd have a central curation database (just saying) that would allow immediate entry of the data.5 KB (816 words) - 16:43, 17 May 2018
- ** Building the GBrowse database for incognita2 KB (254 words) - 10:42, 12 August 2009
- ...e discussion with stakeholders. Leaning towards implementing at curatorial database.1 KB (201 words) - 19:18, 24 January 2013
- '''Field 9 OMIM disease for Exp Mod(dis_dbexpmod):''' Database for Exp Mod <br/ > Q:Same as xref Database, but a different field ? <br/ >14 KB (2,085 words) - 20:27, 7 July 2022
- i) database.WS131.*.tar.gz - compressed data for new release ...models.wrm.WS131 - the latest database schema (also in above database files)6 KB (669 words) - 11:18, 21 December 2011
- i) database.WS107.*.tar.gz - compressed data for new release ...models.wrm.WS107 - the latest database schema (also in above database files)6 KB (659 words) - 11:17, 21 December 2011
- === Database changes to WormBase === * What system might enable ~real-time annotations or corrections to the database/site?6 KB (823 words) - 19:38, 2 January 2014
- wormbase user database configuration2 KB (254 words) - 21:18, 27 January 2011
- i) database.WS203.*.tar.gz - compressed data for new release ...models.wrm.WS203 - the latest database schema (also in above database files)6 KB (662 words) - 16:50, 21 December 2011
- i) database.WS163.*.tar.gz - compressed data for new release ...models.wrm.WS163 - the latest database schema (also in above database files)6 KB (645 words) - 10:57, 21 December 2011
- grep 'DB_info Database "PDB"' <MERGED.ace> | cut -d' ' -f5 | cut -d'_' -f1 | sort -u > pdb_ids.txt2 KB (265 words) - 23:37, 13 August 2010
- ...dividual statements/sentences from literature for data presence/absence in database * What are considerations for future database migration? We should account for migration delays to curation, etc.6 KB (857 words) - 16:01, 2 October 2014
- * database will be shared among individual sites1,021 bytes (134 words) - 21:44, 2 March 2011
- i) database.WS158.*.tar.gz - compressed data for new release ...models.wrm.WS158 - the latest database schema (also in above database files)6 KB (673 words) - 11:07, 21 December 2011
- i) database.WS209.*.tar.gz - compressed data for new release ...models.wrm.WS209 - the latest database schema (also in above database files)6 KB (687 words) - 16:50, 21 December 2011
- ...although there are likely many more Errata that we just don't have in the database. Ideally, it'd be good to collect all of the Errata, but that job will com2 KB (248 words) - 22:57, 13 August 2010
- ** Instead of associating in the database and the reference widget, provide a linkout for which papers reference a gi1 KB (236 words) - 15:55, 17 October 2019
- DB_info Database ?Database ?Database_field ?Accession_number //For Darin genbank genpep ids7 KB (712 words) - 10:40, 4 October 2010
- tace: status -database2 KB (241 words) - 15:32, 15 May 2013
- i) database.WS198.*.tar.gz - compressed data for new release ...models.wrm.WS198 - the latest database schema (also in above database files)6 KB (692 words) - 16:51, 21 December 2011
- i) database.WS197.*.tar.gz - compressed data for new release ...models.wrm.WS197 - the latest database schema (also in above database files)6 KB (672 words) - 16:43, 21 December 2011
- i) database.WS201.*.tar.gz - compressed data for new release ii) models.wrm.WS201 - the latest database schema (also in above database files)6 KB (665 words) - 16:42, 21 December 2011
- i) database.WS127.*.tar.gz - compressed data for new release ...models.wrm.WS127 - the latest database schema (also in above database files)7 KB (872 words) - 11:18, 21 December 2011
- i) database.WS200.*.tar.gz - compressed data for new release ...models.wrm.WS200 - the latest database schema (also in above database files)6 KB (722 words) - 16:43, 21 December 2011
- i) database.WS117.*.tar.gz - compressed data for new release ...models.wrm.WS117 - the latest database schema (also in above database files)6 KB (695 words) - 11:17, 21 December 2011
- i) database.WS146.*.tar.gz - compressed data for new release ...models.wrm.WS146 - the latest database schema (also in above database files)6 KB (670 words) - 11:09, 21 December 2011
- i) database.WS179.*.tar.gz - compressed data for new release ...models.wrm.WS179 - the latest database schema (also in above database files)8 KB (843 words) - 10:53, 21 December 2011
- * adds new categories of the latest eggNOG database DB_info Database ?Database ?Database_field ?Accession_number XREF Homology_group8 KB (879 words) - 09:32, 3 February 2012
- * put the omim descriptions into the database ... and I thought there of you and your flat files to get the data. That wo * the omim database record needs to be updated, as omim is now on www.omim.org (done by Mary An4 KB (583 words) - 20:22, 29 July 2011
- *Big issues include plans for the database- mostly Hinxton and OICR, what are major issues to come to grips with **[Lincoln] Underlying database, there is a concrete plan to move away from acedb3 KB (560 words) - 16:24, 2 August 2012
- *Affected: OMIM ids are in the manual curation at Caltech postgres database but don't show on website (check if dumped for data upload)2 KB (243 words) - 16:07, 4 April 2024
- i) database.WS214.*.tar.gz - compressed data for new release ...models.wrm.WS214 - the latest database schema (also in above database files)6 KB (709 words) - 16:49, 21 December 2011
