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- 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
- i) database.WS122.*.tar.gz - compressed data for new release ...WS122 - the latest database schema (also in above database files)6 KB (721 words) - 11:18, 21 December 2011
- *The tool was not working because of disconnecting the blast database. After fixing the connection, ePCR tool is working now.2 KB (265 words) - 21:19, 21 January 2021
- *Select Database, e.g. "WormBase Release 188"2 KB (296 words) - 10:43, 31 January 2013
- i) database.WS205.*.tar.gz - compressed data for new release ...models.wrm.WS205 - the latest database schema (also in above database files)6 KB (711 words) - 16:31, 21 December 2011
- *Daniela will add a Database tag to the ?Movie class === Database OA ===13 KB (1,983 words) - 16:40, 7 November 2013
- ...og-1. Select one subfield from each of the following fields: Wormbase IDs, Database IDs, Gene Info, Protein, Phene, and Sequence.2 KB (294 words) - 18:25, 17 August 2010
- i) database.WS181.*.tar.gz - compressed data for new release ...models.wrm.WS181 - the latest database schema (also in above database files)8 KB (885 words) - 16:47, 21 December 2011
- i) database.WS210.*.tar.gz - compressed data for new release ...models.wrm.WS210 - the latest database schema (also in above database files)6 KB (721 words) - 16:46, 21 December 2011
- *Column 3: DB: which was the database from which the identifiers in 'DB object ID' and 'DB Object Symbol' are dra *Column 4: DB Object Symbol: Doesn't need the database prefix 'WB:" as it's tied to the ObjectID field which does10 KB (1,599 words) - 18:53, 24 January 2019
- i) database.WS182.*.tar.gz - compressed data for new release ...models.wrm.WS182 - the latest database schema (also in above database files)6 KB (716 words) - 16:48, 21 December 2011
- i) database.WS142.*.tar.gz - compressed data for new release ...models.wrm.WS142 - the latest database schema (also in above database files)7 KB (720 words) - 11:09, 21 December 2011
- i) database.WS190.*.tar.gz - compressed data for new release ...models.wrm.WS190 - the latest database schema (also in above database files)8 KB (913 words) - 16:46, 21 December 2011
- **Select the latest database and the '''Gene''' dataset.3 KB (348 words) - 10:42, 31 January 2013
- i) database.WS169.*.tar.gz - compressed data for new release ...models.wrm.WS169 - the latest database schema (also in above database files)8 KB (787 words) - 10:56, 21 December 2011
- it is in the ACeDB database on the genes as ortholog/paralog, but we also dump it since a while each bu2 KB (336 words) - 14:08, 27 August 2015
- i) database.WS213.*.tar.gz - compressed data for new release ...models.wrm.WS213 - the latest database schema (also in above database files)6 KB (764 words) - 16:45, 21 December 2011
- i) database.WS138.*.tar.gz - compressed data for new release ...models.wrm.WS138 - the latest database schema (also in above database files)6 KB (740 words) - 11:19, 21 December 2011
- * Marian Walhout lab created the WormFlux database (http://wormflux.umassmed.edu/) === AGR database ===10 KB (1,527 words) - 15:32, 6 April 2017
- | Update CLUSTAL database3 KB (568 words) - 16:43, 17 February 2011
- **Datomic database was not available until yesterday ***Datomic database is not available until after the official ACeDB release7 KB (1,077 words) - 16:26, 20 July 2017
- DB_info ?Database ?Database_field Text DB_info ?Database ?Database_field Text16 KB (1,695 words) - 08:29, 12 May 2014
- #Paper database code:numerical identifier:Paper section:Sentence ID in Textpresso document:2 KB (261 words) - 17:08, 16 April 2013
- The accession number, proceeded by the database name.2 KB (281 words) - 21:51, 11 August 2010
- * the id could be added as database-xref to AGR or as reference to a gene stub imported from AGR1 KB (205 words) - 17:27, 19 November 2020
- * Database handles1 KB (181 words) - 15:58, 20 September 2013
- i) database.WS188.*.tar.gz - compressed data for new release ...models.wrm.WS188 - the latest database schema (also in above database files)6 KB (769 words) - 11:01, 21 December 2011
- i) database.WS194.*.tar.gz - compressed data for new release ...models.wrm.WS194 - the latest database schema (also in above database files)8 KB (936 words) - 16:48, 21 December 2011
- i) database.WS178.*.tar.gz - compressed data for new release ...models.wrm.WS178 - the latest database schema (also in above database files)7 KB (762 words) - 10:53, 21 December 2011
- ...d Descendant. I'm not clear on how these tag values would get used in the database and/or website and if they are really needed. infrastructure - issues - needs - curation database - interaction with the db4 KB (691 words) - 17:16, 21 June 2018
- ...data allowing the incorporation of much larger volumes of data. The WS119 database release contains 1,579,726 microarray data points from 13 papers that descr ...ebrd/cgi-bin/forms/allele.cgi. All submissions will be acknowledged in our database.6 KB (914 words) - 15:39, 24 September 2007
- DB_info Database ?Database ?Database_field UNIQUE ?Accession_number XREF Clone // added [031120 krb] DB_info Database ?Database ?Database_field ?Accession_number XREF Clone // added [031120 krb]10 KB (1,176 words) - 22:24, 18 March 2014
- i) database.WS154.*.tar.gz - compressed data for new release ...models.wrm.WS154 - the latest database schema (also in above database files)7 KB (749 words) - 11:08, 21 December 2011
- i) database.WS193.*.tar.gz - compressed data for new release ...models.wrm.WS193 - the latest database schema (also in above database files)8 KB (944 words) - 16:52, 21 December 2011
- TH: PD has test database with these changes; everything looks good. To date this is the sole proposa1 KB (202 words) - 12:30, 12 April 2012
- i) database.WS216.*.tar.gz - compressed data for new release ...models.wrm.WS216 - the latest database schema (also in above database files)7 KB (818 words) - 11:10, 21 December 2011
- === Database migration === * Deployed new curation database (the database currently known as "Genetomic") on fresh AWS instance, documenting along th11 KB (1,714 words) - 11:04, 27 July 2015
- i) database.WS202.*.tar.gz - compressed data for new release ...models.wrm.WS202 - the latest database schema (also in above database files)6 KB (770 words) - 11:06, 21 December 2011
- DB_info Database ?Database ?Database_field UNIQUE ?Accession_number XREF Sequence DB_annotation ?Database UNIQUE ?LongText12 KB (1,258 words) - 09:29, 5 October 2010
- It has postgres database ID 2712 testdb=> SELECT * FROM app_tempname WHERE joinkey = '2712'; join ...edo counts for all objects as above. Compare object numbers between latest database and new .ace file to make sure data in the dump looks reasonable, i.e., no5 KB (749 words) - 19:47, 17 May 2018
- i) database.WS180.*.tar.gz - compressed data for new release ...models.wrm.WS180 - the latest database schema (also in above database files)7 KB (771 words) - 10:52, 21 December 2011
- ** In new database structure, these will likely not get names or IDs, just an internal identif2 KB (288 words) - 16:54, 4 December 2014
- '''Expand database connectivity and make it more robust (Xq)'''2 KB (313 words) - 16:52, 7 April 2010
- * OMIM IDs in database; need brief descriptions? ...meta information on objects OUT of the acedb database into a more amenable database/interface structure.6 KB (842 words) - 17:01, 21 October 2011
- ... - the latest database schema (also in above database files)<br>iii) CHROMOSOMES/subdir ...e from www.acedb.org).<br><br>4. Use the acedb 'xace' program to open your database, e.g.<br> type 'xace /users/yourname/wormbase' at the com11 KB (1,614 words) - 16:52, 21 December 2011
- ...tting Creative Biolabs listed and submitting C. elegans antibodies to your database."2 KB (303 words) - 15:59, 4 November 2021
- i) database.WS147.*.tar.gz - compressed data for new release ...models.wrm.WS147 - the latest database schema (also in above database files)7 KB (815 words) - 11:09, 21 December 2011
- i) database.WS170.*.tar.gz - compressed data for new release ...models.wrm.WS170 - the latest database schema (also in above database files)8 KB (820 words) - 10:51, 21 December 2011
- DB_info Database ?Database ?Database_field UNIQUE ?Text //to link out to KO pages ar2 02-DEC-058 KB (853 words) - 23:50, 16 April 2014
- * Should be automatic for authors to submit data to database without being forced to by journals. * ZFIN uses this format: three letter database- class-number, ex: ZDB-GENE-980526-388,ZDB-TSCRIPT-110325-1492, ZDB-MRPHLNO5 KB (732 words) - 14:46, 29 April 2016
- ** database backup: /nfs/wormbase/wormmine/database_dumps | PostgreSQL || 8.3 || database25 KB (3,652 words) - 23:06, 25 December 2014
- # Update the database for the search function. (This is taken care of by a weekly cron job on bot3 KB (508 words) - 15:41, 24 September 2007
- ...discussion for getting statistics for pages from either Elasticsearch, the database, or from EBI and displaying them on a WB page2 KB (315 words) - 21:06, 3 July 2020
- i) database.WS177.*.tar.gz - compressed data for new release ...models.wrm.WS177 - the latest database schema (also in above database files)9 KB (819 words) - 10:53, 21 December 2011
- *Database corruption (ACEDB) problem *A lot of work to get database and history maker/curation tool working4 KB (617 words) - 17:01, 19 July 2012
- ...ID) of the already committed data is the same as the data in the postgres database. ...ith a record (character line) that has no pgdbID but already exists in the database.6 KB (1,053 words) - 20:38, 24 September 2010
- A new database tag 'Human disease gene relevance' was introduced so that we can highlight ...disease gene/disease. Currently, we have 80 of these descriptions in the database.5 KB (782 words) - 20:56, 8 January 2020
- *number of Disease Ontology terms (DO) terms in database2 KB (307 words) - 14:04, 7 February 2013
- ...- Everything needed to generate a local copy of the The Primary database - database.WS228.*.tar.gz - compressed acedb database for new release14 KB (1,572 words) - 10:37, 11 November 2011
- ...del’ annotations not be submitted to the Alliance at all. In our curation database at Caltech, the new style ‘Disease_model_annotation’ and the old style2 KB (318 words) - 17:43, 26 October 2023
- ...casional delays because of problems in the complex process of building the database caused by changes to its structure. ...y of you know, since the summer, access to Incyte/Proteome's useful wormPD database is now by subscription only. Over the past few years, we had purposely avoi7 KB (1,180 words) - 11:00, 21 December 2011
- NOTE: <span class="smallred">WormBase is a scientific database for experimental work on ''C. elegans'' and other laboratory nematodes: it3 KB (383 words) - 16:15, 15 December 2011
- # The legacy C. briggsae database2 KB (261 words) - 18:27, 11 August 2010
- ...ing either current or obsolete gene predictions for ''C. elegans''. In the database, they are given uninformative serial numbers such as "WBGene00021622". Howe ...query, this will produce a summary page having one or more entries in the database with the general format Gene:'''xyz-N'''. Examine the entries and click on5 KB (855 words) - 19:57, 11 August 2010
- *Change "?Accession_number" above to full database reference "?Database, ?Database_field, ?Accession_number" *Not currently running off of our (worm) database/ontologies7 KB (1,123 words) - 16:39, 6 December 2012
- DB_info Database ?Database ?Database_field ?Text //for genes from non WB species ?Analysis DB_info Database ?Database ?Database_field ?Text15 KB (1,645 words) - 18:54, 23 January 2014
- ...scripts/dump_scripts/dump_nucleotide.pl - Dump nucl.fa for c_elegans blast database4 KB (506 words) - 20:45, 10 August 2010
- ...uggest does a fast, context-sensitive, asynchronous search on a simplified database to identify optimal search queries that are guaranteed to produce a result2 KB (335 words) - 18:24, 17 August 2010
- 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 searchi2 KB (399 words) - 18:32, 17 August 2010
- ...all volumes have been indexed. PubMed continues to add journals to their database and they try to index the backlog as they're able.2 KB (381 words) - 16:53, 2 November 2010
- Raymond : Good issue to consider for database migration. There's a difference between tracking typos and real data chang Juancarlos : We could, but need the future database to support it.15 KB (2,374 words) - 16:00, 17 July 2014
- ...y dictyBase curators will be stored on tazendra and exported to protein2go database at EBI (UniProt-GOA)2 KB (376 words) - 20:49, 28 June 2012
- 1) We will have a project meeting focused on the database in March of 20142 KB (309 words) - 19:45, 5 December 2013
- *We (EBI & OICR) spend a lot of time building ACEDB database *Makes more sense to adopt a more central database7 KB (1,074 words) - 17:19, 4 October 2012
- ...model and unused tags for WS245 elegans data from pre-merged BUILD/elegans database.4 KB (394 words) - 08:39, 16 September 2014
- **Select the latest database release,3 KB (386 words) - 10:41, 31 January 2013
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS222.*.tar.gz - compressed acedb database for new release15 KB (1,647 words) - 10:06, 22 December 2010
- *Topics to place posters under? Database, biological topics? ***Raymond re-installed WS database4 KB (651 words) - 16:11, 2 May 2013
- ...g of the Gene or some other classes in Datomic? Will it become the primary database?2 KB (323 words) - 18:24, 15 November 2018
- * So much has changed in terms of database and web technology since online bio DBs began === Database migration ===7 KB (1,058 words) - 15:32, 2 April 2015
- integration of C.remanei data into the canonical ACeDB database2 KB (324 words) - 19:34, 11 August 2010
- *Database migration community annotation2 KB (242 words) - 17:09, 6 January 2011
- ...a mechanism for marking genes as comprehensively annotated in our curation database, so currently we're using the following criteria for assessing annotation c2 KB (379 words) - 18:52, 16 August 2010
- ...- Everything needed to generate a local copy of the The Primary database - database.WS232.*.tar.gz - compressed acedb database for new release15 KB (1,729 words) - 14:15, 13 September 2012
- i) database.WS174.*.tar.gz - compressed data for new release ...models.wrm.WS174 - the latest database schema (also in above database files)8 KB (938 words) - 10:54, 21 December 2011
- ...can use a local machine for building a release and then transfer the built database to a live machine in the cloud. This approach also alleviates some sysadmin2 KB (259 words) - 16:14, 2 September 2021
- **Strain model - add Database connection2 KB (303 words) - 09:13, 5 October 2012
- ...- Everything needed to generate a local copy of the The Primary database - database.WS227.*.tar.gz - compressed acedb database for new release15 KB (1,738 words) - 11:20, 21 December 2011
- ...ins instructions. The main configuration requirement is setting up a MySQL database and a temporary directory where the validator can write to. Please refer to3 KB (422 words) - 23:12, 13 August 2010
- ...exception in WormBase::Web::Controller::Tools->tools "Could not connect to database acedb _WS280, host: 7e85f19c6634"2 KB (347 words) - 14:07, 2 July 2021
- i) database.WS217.*.tar.gz - compressed data for new release ...models.wrm.WS217 - the latest database schema (also in above database files)8 KB (915 words) - 11:10, 21 December 2011
- ** queries backend database2 KB (253 words) - 15:33, 6 September 2013
- 2. What is the back-end database of SPELL? SPELL is run on top of a mySQL database including four tables: "datasets", "exprs", "genes", "users".6 KB (964 words) - 18:49, 22 May 2018
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS225.*.tar.gz - compressed acedb database for new release16 KB (1,674 words) - 11:38, 20 April 2011
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS223.*.tar.gz - compressed acedb database for new release15 KB (1,610 words) - 11:20, 21 December 2011
- * ???Database migration – probably too technical and beyond the scope…probably wont g **Database Migration5 KB (763 words) - 00:51, 19 September 2014
- * Anything that will diverge the database from the gff files.2 KB (308 words) - 10:39, 30 March 2011
- ...totype. It seems likely that many of them could be removed when we switch database. | :database-field/remark35 KB (4,174 words) - 10:52, 2 February 2015
- ...ain page has fields and menus that are used for a basic search of the full database (http://www.wormbase.org/wiki/index.php/Image:Fig_1_8_01.png). A user can c3 KB (465 words) - 23:40, 30 November 2010
- ...- Everything needed to generate a local copy of the The Primary database - database.WS234.*.tar.gz - compressed acedb database for new release15 KB (1,653 words) - 10:13, 18 January 2013
- ...nsider for future database migration and potential use of a common central database === Testing complex data in a central curation database ===10 KB (1,474 words) - 15:54, 30 April 2014
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS224.*.tar.gz - compressed acedb database for new release15 KB (1,583 words) - 11:13, 21 December 2011
- i) database.WS189.*.tar.gz - compressed data for new release ...models.wrm.WS189 - the latest database schema (also in above database files)6 KB (668 words) - 11:01, 21 December 2011
- Primary database x) database.WS218.*.tar.gz - compressed acedb database for new release15 KB (1,756 words) - 11:21, 21 December 2011
- ...- Everything needed to generate a local copy of the The Primary database - database.WS233.*.tar.gz - compressed acedb database for new release17 KB (2,002 words) - 14:17, 13 September 2012
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS220.*.tar.gz - compressed acedb database for new release16 KB (1,762 words) - 11:10, 21 December 2011
- * ?Person class - Database tag added for ORCID * ?Protein Class - Remove the UNIQUE tag on the Database Text field.8 KB (1,246 words) - 15:52, 12 November 2013
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS219.*.tar.gz - compressed acedb database for new release15 KB (1,622 words) - 11:11, 21 December 2011
- *Flat file Postgres database, replaced every night? *We should check patch before we send to Todd!!! Don't want to crash database13 KB (2,097 words) - 22:48, 7 April 2011
- ...- Everything needed to generate a local copy of the The Primary database - database.WS231.*.tar.gz - compressed acedb database for new release16 KB (1,820 words) - 14:15, 13 September 2012
- ...ID and WB can exchange interaction curation information via mapping of the database objects between the two groups.3 KB (391 words) - 22:13, 22 February 2011
- ...for protein annotation who wish to maintain their annotations in their own database. These values can be used to keep track of individual annotations.3 KB (343 words) - 22:25, 7 February 2013
- * Want to have links out to their database from WormBase * They would like to have integrated views of their database in WB; may be too difficult to have an integrated view5 KB (831 words) - 16:49, 1 December 2016
- * [[Building WormMart|Building WormMart]] - ''How to convert a WormBase AceDB database into WormMart'' .... Software development period|Software development period]] - ''Once a new database has been staged, the development phase begins in earnest on private develop12 KB (1,638 words) - 18:25, 18 June 2014
- * May require adding a Database tag to the ?Movie model * Raymond wouldn't need to build the GFF database8 KB (1,225 words) - 16:33, 3 October 2013
- What is also clear is that people want a database for resources and are interested in a newsletter and are themselves willing3 KB (438 words) - 20:42, 29 August 2020
- ...tion/authentication, caching, and complete RESTful interface to the entire database. ...o it. This lets us automatically expire entries when a new version of the database is released. Note that this ONLY works if you use both check_cache() and s10 KB (1,357 words) - 14:03, 19 June 2014
- *SGD would like to incorporate SVM into they're database *What tools will each database use and how will we share data?7 KB (1,064 words) - 19:12, 3 November 2011
- *It will be up to Caltech to integrate the annotations into their curation database and perform any necessary editing and QC there. ...generated by the Phenotype2GO pipeline will be uploaded into the postgres database at Caltech so they will be visible in the OA curation tool for review and e7 KB (1,164 words) - 17:54, 19 February 2015
- Database "OMIM" "disease" "310200" Database "OMIM" "disease" "178500"32 KB (3,649 words) - 20:55, 21 May 2020
- ...- Everything needed to generate a local copy of the The Primary database - database.WS235.*.tar.gz - compressed acedb database for new release15 KB (1,708 words) - 10:14, 18 January 2013
- ...- Everything needed to generate a local copy of the The Primary database x) database.WS221.*.tar.gz - compressed acedb database for new release17 KB (1,758 words) - 16:47, 21 December 2011
- |32|| Database "OMIM" "gene" || OMIM Gene||dis_genedisrel||"OMIM" "gene" "608441"||n |33|| Database "OMIM" "disease|| OMIM Disease||dis_dbexpmod||"OMIM" "disease" "6107436 KB (4,595 words) - 18:10, 15 March 2023
- ...- Everything needed to generate a local copy of the The Primary database - database.WS284.*.tar.gz - compressed acedb database for new release17 KB (1,841 words) - 21:54, 11 May 2023
- ...ntology] is used in WormBase to describe relations between entities in the database, e.g. genes and GO terms.3 KB (453 words) - 18:27, 20 September 2023
- ...- Everything needed to generate a local copy of the The Primary database - database.WS226.*.tar.gz - compressed acedb database for new release21 KB (2,346 words) - 11:15, 21 December 2011
- ...- Everything needed to generate a local copy of the The Primary database - database.WS288.*.tar.gz - compressed acedb database for new release16 KB (1,733 words) - 21:55, 11 May 2023
- ...ll” stage. There are discussions among the MODs on their architecture and database builds.3 KB (457 words) - 19:24, 7 July 2016
- * Neuronal connectivity, collaborative database with Scott Emmons and colleagues * Many authors want to share and make links to their database/website via WormBase10 KB (1,464 words) - 17:09, 13 August 2015
- * Database migration2 KB (371 words) - 18:38, 17 December 2015
- ...- Everything needed to generate a local copy of the The Primary database - database.WS230.*.tar.gz - compressed acedb database for new release17 KB (1,950 words) - 09:37, 7 February 2012
- * Human genes should be referenced as HGNC ID objects in WB curation database.3 KB (410 words) - 18:23, 24 March 2020
- Database "SGD" "SGD" "S000002542" Database "Panther" "PTN" "000246517"17 KB (2,104 words) - 22:44, 17 December 2014
- ** moving on to database compaction (save 10G)2 KB (346 words) - 21:47, 7 December 2011
- ...made one. It's available and easy to extract data from that form into the database. Can we strip the form down to get minimal useful information and improve u3 KB (441 words) - 17:15, 1 August 2019
- ...s two logs. These are both located in the "database" folder of the current database. *** aren't, the database will not be able to start. This is not16 KB (2,589 words) - 20:19, 29 March 2012
- * looking at it, will start loading data into the database, see how it goes on wb-dev2 KB (293 words) - 15:57, 24 May 2013
- ...- Everything needed to generate a local copy of the The Primary database - database.WS229.*.tar.gz - compressed acedb database for new release17 KB (1,988 words) - 11:15, 21 December 2011
- ...annotations this will be a literature reference, this may also be another database or a method in computational analysis. Sometimes the annotation is based on3 KB (502 words) - 18:28, 17 August 2010
- <td>Unpack and Load the ClustalW database</td> -- database25 KB (3,632 words) - 03:11, 28 October 2013
- === Database migration ===8 KB (1,229 words) - 15:31, 1 June 2017
- As the default GenomeDB locations in the database point to the Sanger setup, you should use a EnsEMBL registry to access your21 KB (2,963 words) - 18:18, 11 August 2010
- | [[WormBase Model:Database|Database]]12 KB (1,559 words) - 18:14, 15 June 2011
- SMID-DB - Small Molecule Identifier DataBase ...rator||Textpresso category searches, Manual curation: curator||Genes, OMIM Database Identifiers||9 KB (1,174 words) - 18:30, 29 August 2012
- Checks for a new release of the database. If present, installs it. If not, simply updates the software.2 KB (351 words) - 17:30, 19 June 2014
- DB_info Database ?Database ?Database_field Text8 KB (1,088 words) - 22:59, 29 July 2016
- *Don't need a central/unified curation system to have a central database, but may help reduce some effort/work *Arguably, common/central curation tool and database could speed up curation across different databases6 KB (944 words) - 16:25, 1 November 2012
- ...using gene expression markers of known cell types, but there is no current database of this information. It would be great to organize this information such th ...ate a collaborating information center built on top of the WormBase people database, using social network analysis. For instance, you can (ideally automaticall11 KB (1,649 words) - 16:10, 19 July 2018
- * Wen will set up a local database with the proposed ?Construct model * All entities have to be checked in and exist in some database6 KB (801 words) - 17:29, 2 July 2014
- ...production environment consists of a series of partially redundant web and database servers, most sitting behind a load-balancing reverse-proxy server running * How/where is the back end node hosting the user database specified?32 KB (4,370 words) - 20:48, 18 June 2014
- *Web team working on setting up unit testing to catch database problems before they make it on the web3 KB (436 words) - 17:59, 11 July 2013
- .../pub2/wormbase/data/compara_ngasp.tar.bz2 COMPARA] databases (incl. a core database per species, orthologies, mlagan 3-way genomic alignments using WS160 vs la3 KB (454 words) - 18:54, 11 August 2010
- ...lways update postgres on the fly and the table display always matching the database. use filtering or column sorting. ...ills allow non-.obo terms in there (and potentially lets wrong data in the database) ?7 KB (1,075 words) - 21:05, 24 September 2010
- * a pool of redundant database servers running AceDB and MySQL ...rver at WormBase. It maintains a CVS-checked out version of the source and database tarballs that is used to automatically push software and new databases onto9 KB (1,103 words) - 19:14, 18 June 2014
- *Andrew Chatr-Aryamontri, UbiGRID: a database resource for protein and genetic interactions of the ubiquitin-proteasome s *Steven Jupe, A controlled vocabulary for entities and events in the Reactome database7 KB (907 words) - 19:36, 11 April 2014
- ...search (for “Anything”) with a single keyword. A menu of the most-used database searches lines the top of the page, while a list of more specialized data f ...se.org/wiki/index.php/Image:Fig_1_8_01.png)'''. Having searched the entire database for anything matching ''zyg-1'', one sees a plethora of disparate results:19 KB (3,061 words) - 23:01, 13 August 2010
- ...n 2010, the WormBase website resides on a heterogeneous cluster of web and database servers. A single server running the squid reverse proxy software load bala #Here make the selection from the database, get the data from somewhere else...7 KB (1,258 words) - 18:49, 11 August 2010
- * BIGG database, a new metabolite database (http://bigg.ucsd.edu/) * Reviewed FlyBase and Rat Genome Database this week9 KB (1,336 words) - 15:32, 2 June 2016
- *Database build will happen second week of Janurary *Currently building database on Athena and migrating to other machine9 KB (1,339 words) - 19:02, 31 January 2013
- * All GO annotation data loaded at Caltech (bigGO solr database, 54GB) * Karen's SBIR, trying to get gene names from each AGR database7 KB (1,010 words) - 17:08, 4 May 2017
- ...we capture/store/process original data, and what do we display/capture in database? **Website/database6 KB (983 words) - 18:02, 12 July 2012
- | Pathway||pro_pathwaydb||bigtext||Pathway||3||||||||"Database" "Database Field" "Accession Number" ===dbs_tables Database===37 KB (5,333 words) - 19:07, 27 June 2019
- ...e and the information in the 'gpi' file that maps a gene product name to a database identifier #Enter a new gene name and database identifier - how to feedback to MOD?30 KB (4,868 words) - 14:50, 11 June 2013
- * Is the Datomic database denormalized? To what extent? No, not really ** This affects how we might eventually write into Datomic from our curation database9 KB (1,377 words) - 16:44, 2 February 2017
- * Need to have RNAi objects in database3 KB (563 words) - 03:27, 19 March 2022
- *Example data already accessible in the acedb database3 KB (450 words) - 16:07, 7 August 2014
- * Janan Eppig, PI Mouse Genome Database (MGD) * Michael Cherry, PI Saccharomyces Genome Database (SGD)10 KB (1,509 words) - 15:40, 24 September 2007
- ...3 (analagous to GAF column 1) displays "WB" or "WBTransgene" as the source database * Column 21 (analagous to GAF column 15) displays the database that assigned the annotation12 KB (1,718 words) - 17:45, 5 February 2021
- ...= DBI->connect ( "dbi:Pg:dbname=testdb", "", "") or die "Cannot connect to database!\n";# connecting to postres dtabase foreach my $omim (sort keys %omim) { $entry .= qq(Database\t"OMIM"\t"disease"\t"$omim"\n); } #print all the unique OMIM IDs10 KB (1,461 words) - 23:06, 27 February 2017
- ...DB_info Database ?Database ?Database_field ?Text // Any database reference to the interaction outside of WormBase, e.g. BioGRID, Interactome 'Database Field Accession Number' = int_database53 KB (6,521 words) - 20:51, 7 March 2019
- *Paul S: how are molecular changes put in the database? Paul D: via multiple routes one being the allele sequence submission form.3 KB (523 words) - 11:20, 3 April 2020
- ...of background info as well as step-by-step instructions on how to use the database and website3 KB (466 words) - 09:34, 3 March 2017
- * There may be a new backend as well (running off graph database?)3 KB (493 words) - 16:08, 16 March 2017
- having a single CGC name shared between two different genes would work in the database and preserve the current naming but could potentially result in problems fo ...to fit with what is required at this locus and breaks fewest things in the database, website and current nomenclature guidelines. Paul Sternberg agreed with th8 KB (1,391 words) - 11:57, 6 August 2014
- *'''Pgdbid''' - postgres database ID, autogenerated * Pgdbid- postgres database ID, entered automatically when curator enters a new transgene9 KB (1,321 words) - 21:59, 3 May 2020
- => structure function database - manually curated super families can downlod from database13 KB (1,803 words) - 19:13, 11 April 2014
- * Author First Pass form paper, submitting to Database, biocuration issue (managed by biocuration group); authors have an opportun ** 2) Not part of database build, but make associations live (using RESTful API to link out to Textpre13 KB (2,025 words) - 16:28, 7 November 2019
- ** database wholesale, easy transition to C. elegans, but we need to be the provider fo3 KB (539 words) - 10:56, 5 June 2015
- *ISS annotations need database identifiers in With/From #Action - retrieve from database all genes with an ISS and an experimental evidence code annotation to the s14 KB (1,928 words) - 19:10, 25 January 2013
- ...s minimum of CPU speed and RAM will yield a usable but annoyingly sluggish database. Better specifications are one 2 GHz CPU, 2 Gb of RAM. Better still is to h4 KB (623 words) - 20:00, 11 August 2010
- ...e...almost have finalised schema - would be good to have the schema in the database3 KB (561 words) - 18:39, 6 February 2020
- ...or this, it seems that a tag or field that marks them appropriately in the database would be best, as opposed to always having a curator select or de-select a ...n we have both ways; Some filtering happens via using a information from a database, and there is an option to use a local list (file) customized by a curator.17 KB (2,749 words) - 20:04, 21 January 2011
- ...ACEDB representation of the object suitable for loading into a local ACeDB database, create a link to <code>http://www.wormbase.org/db/misc/acedb?name=X;class=6 KB (1,087 words) - 15:07, 19 June 2014
- * '''Database migration''' ** 1530-1545 - Database migration - status and roadmap - Adam8 KB (1,130 words) - 13:27, 4 February 2016
- Not dumped. This is the Postgres database ID that records the action and is assigned automatically on “save data” ...o verify that an '''''allele''''' or '''''rearrangement''''' exists in the database already. Enter object name and press retrieve to view information from the12 KB (1,991 words) - 23:45, 14 February 2011
- ...long as the gene name is unique from elegans gene names, and exists in the database, this should not be a problem. One error we ran into is that some names are **Not all transgenes are captured by our database. Specifically, Ex arrays and plasmids/cosmids used for injections are not10 KB (1,696 words) - 17:21, 25 July 2013
- ...e is not a tag in ?Sequence_collection. Suggest we store this info. in the Database tag''4 KB (597 words) - 18:34, 31 October 2012
- ** A: it runs the production Datomic database on Amazon cloud. It’s intended for high performance and low maintenance.4 KB (572 words) - 17:29, 17 March 2016
- WormBase is updated with each new build of the database released from Sanger. The live site and the development sites are updated o C. Update the strain list database34 KB (5,450 words) - 18:24, 17 August 2010
- *Common themes: data standards, how to educate users of database materials and how to use it (and think critically) **Object-oriented database7 KB (1,158 words) - 17:20, 3 May 2012
- Michael also want to remove unused database connections from the models3 KB (486 words) - 11:14, 21 December 2011
- * Would be best to link directly to the respective Transgenome database page when displaying their data ...be added to release notes that the Transgenome data has been added to the database8 KB (1,289 words) - 18:11, 10 November 2016
- Database "OMIM" "gene" "613891 " Database "OMIM" "disease" "258900"8 KB (1,121 words) - 14:01, 15 July 2019
- ''Sessions and locks will be stored in the sessions database.'' > mysql -u root -p -e 'create database sessions'20 KB (2,916 words) - 15:25, 4 August 2016
- ...e WS244 actually had evidence. Possible candidates for removal in the new database?7 KB (604 words) - 18:21, 11 November 2014
- ** you can use the empty database by ssh -X citpub@spica.caltech.edu DB_info Database ?Database ?Database_field ?Text // Any database reference to the interaction outside of WormBase, e.g. BioGRID, Interactome50 KB (5,228 words) - 15:10, 21 July 2017
- ***Need to change SPELL database to incorporate new species Database paper12 KB (1,878 words) - 15:55, 6 September 2012
- A Backbone.js + jQuery Mobile app for accessing the Wormbase database through its RESTful API.5 KB (769 words) - 15:16, 19 June 2014
- ...identification of protein motifs or domains contained within the InterPro database (http://www.ebi.ac.uk/interpro/), and their mapping to GO terms provided by InterPro2GO and TMHMM2GO annotations are updated with every database release.13 KB (1,830 words) - 16:40, 13 December 2012
- * It currently consists of a perl script that queries an acedb database for data from Gene, CDS, Transcript and Pseudogene classes to produce png i4 KB (708 words) - 16:41, 16 July 2015
- Database meeting Toronto:4 KB (629 words) - 16:57, 6 February 2014
- * There may be a separation of effort/support for tools vs. database * Knowledgebase vs. database: which are we?8 KB (1,262 words) - 15:34, 3 May 2018
- Mine the underlying AceDB database programmatically using [http://stein.cshl.org/AcePerl/ AcePerl]. It isn't necessary to download a new Virtual Machine for every release of the database. To keep your virtual machine up-to-date, just leave it running overnight.11 KB (1,664 words) - 18:43, 17 August 2010
- '''WormBase: a cross-species database for comparative genomics'''<br />[[User:Tharris|Todd W. Harris]], Raymond L6 KB (781 words) - 02:18, 1 April 2012
- ...how far we've come along in curating the nematode published corpus in our database.6 KB (841 words) - 08:24, 24 October 2014
- ...rs refer to mgDf50 as an allele/variation of daf-16, but not linked in the database4 KB (695 words) - 15:26, 7 June 2012
- ...yway, allowing this save will result in the record updated with a Postgres database ID (pgdbId).5 KB (782 words) - 20:35, 24 September 2010
- DB_info Database ?Database ?Database_field ?Accession_number Accession_evidence ?Database ?Accession_number // Data from a database (NDB/UNIPROT etc)29 KB (4,152 words) - 20:29, 30 July 2019
- | Entered into curation database via custom script4 KB (572 words) - 17:01, 13 January 2021
- ** cleaner database soon4 KB (624 words) - 17:15, 4 April 2013
- ...sent to UniProt GOA's Protein2GO tool as well as saved in a local curation database. *If you need to change an annotation, you first need to delete it from the database by checking the delete button at the right end of the annotation line and t11 KB (1,765 words) - 15:10, 18 February 2014
- // Database directory: /usr/local/wormbase/acedb/wormbase // #### Database dir=/usr/local/acedb/elegans26 KB (3,522 words) - 19:10, 18 June 2014
- * Database issue that is published concurrently with the BioCurator meeting * This way, Wen can perform a simpler query of the database to get condition-specific data10 KB (1,475 words) - 16:57, 5 November 2015
- ...WormBase blog) about what topic we have focused on for that release of the database/website (at the time the site goes live for that release) * Separate meeting? Discussion topic - ACEDB/Database issues, smaller attendance10 KB (1,664 words) - 17:02, 4 December 2013
- ...ss from postgres, add them to WS279 to create a "WS279.1" version of ACeDB database. Then compare WS279.1 to WS279 by comparing the SimpleMine results generate4 KB (695 words) - 14:44, 3 December 2020
- * run on a fully populated WormBase database backend.8 KB (936 words) - 18:39, 18 June 2014
- ...t? Would need an additional field for Analysis objects? Could reference as Database accession number4 KB (622 words) - 16:47, 6 August 2014
- is in the database. For the next phase, results from automated first-pass via6 KB (1,045 words) - 21:14, 24 September 2010
- ...at are flagged and extracted from each primary research publication in our database===5 KB (816 words) - 20:11, 7 September 2011
- ...bridging December January for WS247 or start WS247 as nornal releasing the database at the end of December?5 KB (807 words) - 18:27, 4 September 2014
- * Database migration project5 KB (696 words) - 13:32, 13 July 2018
- ...s in the context of having a UI for seeing what's stored in the persistent database without waiting for elastic search processing to pass it to the regular UI,5 KB (777 words) - 13:18, 1 April 2021
- Brugia database *Mark Blaxter offered to donate his Brugia database into WormBase10 KB (1,553 words) - 18:04, 7 February 2013
- ...for protein annotation who wish to maintain their annotations in their own database. These values can be used to keep track of individual annotations.6 KB (894 words) - 18:00, 11 November 2013
- ****Changed to fetch sequence object from database, determine actual gene and protein, and return using _pack_obj ...ng manually defined in hash to being automatically read from the specified database directory in the config (like blast)29 KB (4,254 words) - 20:25, 27 April 2012
- is in the database. For the next phase, results from automated first-pass via6 KB (1,024 words) - 23:02, 13 August 2010
- *Pathway Database --pathwaydb -- ontology autocomplete on name ''text until your file is re Pathway DB_info Database ?Database ?Database_field ?Accession_number //Can be used for any pathway db with uni20 KB (3,088 words) - 19:17, 13 August 2020
- 4. SAB meeting: A small meeting for database should be scheduled in Jan. or Feb. Need to check location availability for6 KB (909 words) - 21:56, 21 November 2013
- ..., a fast AJAX loading of terms, ability to save/query to/from a postgreSQL database, duplicating data, editing several lines of data at once, and filtering the * PostgreSQL database backend (could probably be modified to other SQL databases).20 KB (3,124 words) - 19:59, 19 February 2020
- i) database.WS215.*.tar.gz - compressed data for new release ...models.wrm.WS215 - the latest database schema (also in above database files)19 KB (1,735 words) - 11:07, 21 December 2011
- * Currently relies on a nightly cronjob to dump GeneACE to Caltech Postgres database5 KB (857 words) - 14:36, 9 March 2020
- acedb/ // The Acedb database (including bin directory) // Database directory: /usr/local/wormbase/acedb/wormbase28 KB (3,957 words) - 19:55, 5 May 2022
- * Alliance needs a curation database5 KB (747 words) - 16:31, 5 December 2019
- ...e is identified as the RNAi target gene regardless of which release of the database you are currently working in. ...pe in the "Genotype" field, or request the addition of the strain into the database.47 KB (7,989 words) - 23:40, 1 September 2015
- | [[WormBase Model:Database|Database]]16 KB (2,207 words) - 23:06, 9 January 2014
- ...e most part this targets papers that have recently been added to our local database, but if an e-mail cannot be found in the paper, at a later date an author m7 KB (1,148 words) - 23:02, 23 October 2014
- ...in their curation database. The curator would need to be logged into the database in order for the link to work. ...h of the boxes so that we can store the already curated information in the database for future look-up. In elegans curation, we are starting to handle these c24 KB (3,814 words) - 18:31, 8 August 2011
- ...eport (Gene model) and Protein report (Protein) pages as well as SwissProt database entries, WormPep amino acid sequences and spliced/unspliced nucleotide sequ7 KB (985 words) - 18:28, 17 August 2010
- ...ion'. Fewer and fewer of these types of papers are now being added to the database.7 KB (1,204 words) - 18:58, 30 June 2014
- This form (link sent) represents a user-friendly interface to a postgres database table stored at WormBase Caltech.7 KB (1,133 words) - 20:36, 23 July 2013
- DB_info Database ?Database ?Database_field Text ...ately, Names are scripted to be used in URL constructions for MeSH and CTD database links resulting in WBMol_id name based URLs would have to be suppressed or,50 KB (6,966 words) - 19:15, 13 August 2020
- ...nce view is itself worth examining, click on it to go to its record in the database. For instance, in the original view of ''zyg-1'', one can click on the ''bl7 KB (1,189 words) - 20:01, 11 August 2010
- These are obviously dependent on being able to connect to the database...9 KB (1,048 words) - 14:59, 15 February 2011
- ...need at least twice that in order to stage and unpack new versions of the database. In addition, count on having another gigabyte used by BLAST databases. WormBase partly runs on ACeDB (a somewhat object-oriented database) while also partly running on relational databases. For this reason, it req60 KB (9,496 words) - 23:06, 13 August 2010
- === What database technology are you using for WormBase? === ...are deposited in an object-oriented database, ACeDB, which is the "master" database containing all data. ACeDB can be accessed both remotely and locally, throu67 KB (10,954 words) - 09:22, 19 February 2013
- * How many papers did we get into the database in the past 5 years?6 KB (910 words) - 15:23, 5 October 2017
- DB_info Database ?Database ?Database_field ?Text // Any database reference to the interaction outside of WormBase, e.g. BioGRID, Interactome DB_info Database ?Database ?Database_field ?Accession_number // Any database reference to the interaction outside of WormBase, e.g. BioGRID, Interactome59 KB (8,367 words) - 22:00, 14 December 2018
- WormBase is derived from the previous ''C. elegans'' database ACeDB (Eeckman and Durbin, 1995). ACeDB was designed to archive and correla ...son for using WormBase is that it represents the most extensive C. elegans database publically available. It is currently designed to make several different ki30 KB (4,765 words) - 20:03, 11 August 2010
- DB_info Database ?Database ?Database_field UNIQUE ?Text //to link out to KO pages ar2 02-DEC-05 Database ?Database ?Database_field ?Text36 KB (4,994 words) - 17:27, 14 February 2024
- ...ow for C. elegans, but other species would need to be added to the PANTHER database6 KB (982 words) - 15:33, 2 July 2015
- * AFP resent to Database7 KB (989 words) - 16:08, 5 February 2020
