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- ...stating ‚"we did RNAi against unc-22" is not enough information for proper curation. We need to unabigiously assign the sequence used in an experiment. In the [[Category:Curation]]530 bytes (85 words) - 18:32, 16 August 2010
- [[Category:Curation]]354 bytes (43 words) - 17:47, 17 August 2010
- [[Category:Curation]]350 bytes (44 words) - 19:41, 10 August 2010
- [[Category:Curation]]1 KB (166 words) - 19:35, 10 August 2010
- =Author Curation=1,002 bytes (141 words) - 23:09, 30 April 2011
- ...y this page should point to a table that is a comprehensive display of the curation status of a given paper as well as a table that can show how far we've come *[http://tazendra.caltech.edu/~postgres/cgi-bin/curation_status.cgi curation status]6 KB (841 words) - 08:24, 24 October 2014
- 10 KB (1,194 words) - 16:35, 13 December 2013
- ===Community Curation=== ...one sort of data type and do not really fall under the remit of Community Curation.1 KB (165 words) - 15:47, 10 April 2015
- = Paper for Curation =7 KB (1,004 words) - 17:50, 13 February 2017
- ...or meeting the hard-code constraints we requested. For variation-phenotype curation, these constraints require that each entry contain a curator, an object typ [[Category:Phenotype Curation]]5 KB (782 words) - 20:35, 24 September 2010
- 1. It appears on the first-pass curation checkout page. The paper is in grey until a pdf or document is available fo ...d for a specific data type is stored in postgres and can be mined from the curation status form [http://wiki.wormbase.org/index.php/New_2012_Curation_Status he3 KB (561 words) - 21:38, 15 August 2013
- [[Category:Phenotype Curation]]9 KB (1,321 words) - 21:59, 3 May 2020
- ==Examples of novel groups of curation issues.==291 bytes (53 words) - 10:19, 21 January 2011
- #REDIRECT [[Noctua model curation tracking table]]50 bytes (6 words) - 20:06, 19 October 2017
- 819 bytes (130 words) - 10:04, 9 November 2010
- =WormBase Curated Data Types and Curation Methods= ...that this page may be periodically updated as both data types curated, and curation methods used, change and improve.''9 KB (1,174 words) - 18:30, 29 August 2012
- Curation Status & Statistics Form (2012) Above is a screenshot of the main page of the Curation Status Form. The user/curator is requested to identify who they wish to log144 KB (18,174 words) - 19:56, 21 January 2021
- = Specifications for Gene - GO Curation Status Form = ...ns protein-coding genes do not have one or more aspects (BP, MF, CC) of GO curation.3 KB (487 words) - 20:29, 18 March 2019
- Workshop 4 - Big Data Curation, Chaired by Owen White & Francis Ouellette Workshop 4 - Big Data Curation, Chaired by Owen White & Francis Ouellette15 KB (2,658 words) - 19:16, 11 April 2014
- 11 KB (1,225 words) - 19:03, 19 March 2018
- *[http://tazendra.caltech.edu/~postgres/cgi-bin/curation_status.cgi Curation status form] has lists, but not completely up-to-date. ! Number of papers flagged manually (from curation status form)5 KB (746 words) - 18:57, 10 August 2010
- Searches would return sentences, one page on the curation form per paper, if possible? ==Curation Workflows==5 KB (764 words) - 21:17, 18 March 2013
- ...plementation using the CCC categories, submit the resulting sentences to a curation form, make annotations, and download the annotations in either a simple thr ...Textpresso using their chosen criteria and export the sentences to the CCC curation form.17 KB (2,749 words) - 20:04, 21 January 2011
- 17 KB (2,104 words) - 22:44, 17 December 2014
- Effective Textpresso searches, and subsequent curation, require the most complete lists of gene and protein names possible. In addition, some types of curation may require matching gene names only, others matching protein names only, o5 KB (857 words) - 23:28, 23 August 2011
Page text matches
- ...want to make researchers aware of the information required for the proper curation of different data sets so they can include this in their publications or pr #[[RNAi curation]]907 bytes (125 words) - 21:27, 19 June 2015
- == AGR Curation Interface Demo == * [https://curation.alliancegenome.org/ Production site]579 bytes (76 words) - 15:42, 16 June 2022
- ==Old phenotype curation pages== #[[Phenote+ Phenotype Curation|Phenote curation tool]]902 bytes (104 words) - 19:51, 20 November 2014
- [[Category:Phenotype Curation]] [[Category:Phenote curation tool]]479 bytes (64 words) - 20:53, 24 September 2010
- ===GO Curation Pipeline at FlyBase=== ==Textpresso for Cellular Component Curation for FlyBase==904 bytes (127 words) - 18:02, 21 July 2011
- ====Topic curation==== *We can then publish important news/topic curation results from the release notes, to the website851 bytes (131 words) - 18:06, 16 October 2014
- ** Gene curation strategies ** Gene curation toools (Web-Apollo)1 KB (175 words) - 10:58, 19 June 2015
- [[Category:Curation]]57 bytes (7 words) - 18:20, 16 August 2010
- [[Category:Curation]]55 bytes (5 words) - 18:44, 11 August 2010
- * Community curation tags134 bytes (16 words) - 11:57, 2 January 2020
- [[Category:Curation]]87 bytes (12 words) - 17:40, 16 August 2010
- #REDIRECT [[Noctua model curation tracking table]]50 bytes (6 words) - 20:06, 19 October 2017
- == 13:30 – 15:30 Sequence curation and analysis, other nematodes == *Curation Tool: Gary Williams ([[Media:9-2008-SAB-Williams.ppt|slides]])2 KB (242 words) - 17:09, 6 January 2011
- [[Category:Curation]]82 bytes (10 words) - 23:22, 13 August 2010
- Based on data curation71 bytes (11 words) - 21:51, 11 May 2011
- '''General specifications for Textpresso-based CCC Curation''' '''Curation'''2 KB (204 words) - 19:18, 17 November 2011
- ...Ms require positive and negative training sets. In the case of first pass curation, this means ..., in part, on the data type. Previous experience with SVMs for first pass curation2 KB (278 words) - 22:31, 16 August 2010
- == Topic curation == == Topic curation ==2 KB (309 words) - 19:45, 5 December 2013
- * Breakdown website to widgets, so that they can be discussed from curation level. Widgets may have different names in each MOD, but they have the same * Besides the google doc for all curation efforts, UMOD also need a technology catalog so that developers know what s2 KB (339 words) - 18:43, 8 April 2016
- 1. Allele curation Need an AGR-friendly curation system1 KB (165 words) - 18:42, 15 August 2019
- **[[First-pass to Curation|Quick summary]] *[[Curation Tasks]]3 KB (325 words) - 17:36, 25 April 2023
- ...stating ‚"we did RNAi against unc-22" is not enough information for proper curation. We need to unabigiously assign the sequence used in an experiment. In the [[Category:Curation]]530 bytes (85 words) - 18:32, 16 August 2010
- * qPCR data curation ...ges for ?Expression_cluster and ?Analysis to accommodate the need for qPCR curation.2 KB (253 words) - 14:58, 13 March 2014
- ...lable, scripts will run to generate and populate the tables needed for the curation form. ...mail alert telling them that there is/is not new source data available for curation.1 KB (201 words) - 20:17, 29 August 2013
- ===Community Curation=== ...one sort of data type and do not really fall under the remit of Community Curation.1 KB (165 words) - 15:47, 10 April 2015
- [[Category:Curation]]184 bytes (28 words) - 18:47, 17 August 2010
- ...sc/wormbase-presentations/2005.11-SAB-CSHL/AP-KVA-RK-2005-SAB-curation.ppt Curation update, Andre Petcherski, Kimberly Van Auken, Ranjana Kishore] ...rmbase-presentations/2005.11-SAB-CSHL/CB-2005-SAB-Phenotypes.ppt Phenotype curation, Carol Bastiani]2 KB (238 words) - 12:04, 20 January 2011
- ...nt (CC) Terms. This index is organized alphabetically and based solely on curation. ...nd annotations to Protein2GO and return a status message at the top of the curation page.3 KB (431 words) - 14:55, 8 July 2014
- ***Monday - dictyBase will identify PDFs for curation ...l process new PDFs, perform CCC search, and send source file output to CCC curation form on tazendra2 KB (376 words) - 20:49, 28 June 2012
- ...> identification and automatic extraction of text for <span class="SpellE">curation</span>. <span style="mso-spacerun: yes"></span>In <span class="SpellE">dat ...ch as <span class="SpellE">Phenote</span> for further <span class="SpellE">curation</span>.<span style="mso-spacerun: yes"></span>4 KB (573 words) - 23:46, 13 August 2010
- == Brugia - update on annotation and curation effort == MP - Outlined protocol developed at Hinxton for curation of Brugia malayi gene models. DB ready for handover to WashU. WashU will lo1 KB (228 words) - 16:54, 6 July 2012
- [[Category:Curation]]174 bytes (26 words) - 23:17, 13 August 2010
- [3] You'll note that curation spans releases. With regards to the week counter, I'm not sure if this was ==== Curation ====2 KB (328 words) - 13:05, 2 June 2014
- #[[Author Curation]] [[Category:Curation]]1 KB (130 words) - 21:21, 15 March 2021
- All papers in the list have the curation flag 'Phenotype2GO' in the paper_editor.cgi [[Category:Curation]]2 KB (313 words) - 18:20, 16 August 2010
- [[Category:Curation]]195 bytes (25 words) - 17:50, 16 August 2010
- '''1030 - 1130''' Sequence curation including all those genomes Sequence Curation in C. elegans and curation tools- Paul Davis3 KB (357 words) - 20:30, 6 June 2014
- [[Category:Phenotype Curation]]313 bytes (41 words) - 20:45, 24 September 2010
- 2) Data integration: The curation tool Wormbase provides to approve the annotations could produce a GAF file.223 bytes (34 words) - 17:30, 19 April 2011
- ...get associations made as quickly as possible (better for users, helps for curation). [[Category:Curation]]986 bytes (140 words) - 19:42, 10 August 2010
- == Phenotype Curation (Ranjana / Chris) ==1 KB (155 words) - 17:01, 19 November 2015
- *manual curation is supposed to start as soon as [[NGASP|NGASP]] predictions for the new ass *EMBL/GenBank submission is supposed to start together with manual curation.2 KB (324 words) - 19:34, 11 August 2010
- == Topic Curation ==1 KB (164 words) - 17:33, 15 January 2015
- == GO-CAM model/pathway curation with orthology data == == Curation program for Summer undergraduate students ==2 KB (303 words) - 18:23, 16 April 2020
- =WormBase Curated Data Types and Curation Methods= ...that this page may be periodically updated as both data types curated, and curation methods used, change and improve.''9 KB (1,174 words) - 18:30, 29 August 2012
- == S. ratti community curation == ...the current WormBase-preferred method of receiving community-driven manual curation data for S. ratti and what types of changes are sufficient?2 KB (373 words) - 17:59, 2 March 2023
- ** We may allow the community to use APOLLO for curation within a year. ** WormBase is one of the few MODs doing sequence-based curation. We need to identify who else is doing this so that we can collaborate. Thi1 KB (229 words) - 16:31, 2 November 2023
- *For example, creating new categories for curation of GO Molecular Function terms related to enzymatic activity by selecting s ...read for another purpose, such as concise descriptions or reference genome curation.3 KB (425 words) - 22:35, 16 August 2010
- [[Category:Curation]]434 bytes (49 words) - 16:49, 5 June 2013
- === Curation === ...e under version control, maintained by a combination of scripts and manual curation3 KB (405 words) - 13:18, 15 January 2016
- [[Category:Curation]]303 bytes (47 words) - 23:22, 13 August 2010
- [[Category:Curation]]317 bytes (48 words) - 18:21, 16 August 2010
- === Strain curation at Caltech ===1 KB (241 words) - 18:19, 7 February 2019
- ::Kimberly Van Auken (interested in how to coordinate with BioGrid curation efforts) == [[Working Group:Curation Priorities|Curation Priorities]] ==2 KB (306 words) - 15:01, 14 January 2016
- [[Category:Curation]]354 bytes (43 words) - 17:47, 17 August 2010
- * KH: Second phase of the migration was the data capture and curation * (discussion about current vs delayed updates of curation databases)1 KB (152 words) - 16:10, 5 April 2018
- [[Category:Curation]]350 bytes (44 words) - 19:41, 10 August 2010
- ...na will discuss how to condense and streamline a presentation on community curation ** We should have a talk about LEGO curation and pathways; Kimberly happy to present4 KB (640 words) - 19:07, 11 February 2016
- [[Category:Curation]]473 bytes (68 words) - 18:50, 10 August 2010
- *dictyBase (Bob) will send Textpresso PMIDs for CCC curation every Monday '''Results File to Curation Tool'''1 KB (205 words) - 17:10, 8 November 2012
- === Sequence curation for phenotypic alleles in papers === ...Oliver Hobert : some published alleles are falling through the cracks for curation; paper mentioned is missing sequence and phenotype3 KB (436 words) - 15:07, 22 July 2019
- * How should we prioritize RNAi versus other gene function curation? === 10:45 - 12:15 Sequence analysis and curation ===4 KB (462 words) - 08:54, 8 October 2014
- [[Category:Phenote curation tool]] [[Category:Phenotype Curation]]1 KB (190 words) - 20:54, 24 September 2010
- == Allele / variation curation == ==Allele curation==4 KB (613 words) - 17:56, 16 January 2020
- ...ration is underway, but Noctua is still under beta testing. Noctua is a GO curation tool that “allows curators to connect together multiple annotations to gi3 KB (457 words) - 19:24, 7 July 2016
- ** 09.45 Caenorhabditis sequence curation - Gary Williams ** 10.15 Curation of regulatory sequence features in C.elegans - Mary Ann Tuli3 KB (438 words) - 07:19, 6 October 2014
- [[Category:Curation]]437 bytes (67 words) - 18:57, 16 August 2010
- As said before we are currently running Variation curation (molecular details) in a maintenence mode where -Can we make an easy to use curation tool/submission form? Mary Ann made one. It's available and easy to extract3 KB (441 words) - 17:15, 1 August 2019
- *Discussion of what features are commonly used in the curation status form252 bytes (35 words) - 17:49, 12 May 2022
- * WashU sequence curation hand over to Hinxton: stlace is now taken over by Hinxton. All C. elegans c * Progress report: Caltech can dump out curation status info from postgres database. We can also do comparision from release2 KB (232 words) - 09:58, 2 August 2013
- [[Category:Curation]]640 bytes (97 words) - 22:32, 16 August 2010
- * Aim 2. Gene-centric curation. None of the paragraphs mention any work or plan for migrating that data cl * Aim 4 now lists worm-specific curation and tools we want to continue to support, outside Alliance2 KB (326 words) - 16:00, 8 September 2022
- #[[Clone CCC curation form for dictyBase - Juancarlos, Kimberly]] #[[dicty curation - Petra, Kimberly]]3 KB (439 words) - 21:25, 6 November 2012
- curation best practices are widespread or saving much curation time when they do participate3 KB (564 words) - 19:15, 10 August 2010
- ==Examples of novel groups of curation issues.==291 bytes (53 words) - 10:19, 21 January 2011
- *How do we assign new strain IDs at the point of curation? ...ID already exists; if not, can request a new strain ID to use in postgres curation database.5 KB (816 words) - 16:43, 17 May 2018
- [[Category:Curation]]372 bytes (60 words) - 20:54, 10 August 2010
- ...e is an idea to make the human disease data more accessible and extend the curation. Discussion items: * Curation3 KB (450 words) - 16:07, 7 August 2014
- ...mber), should we be creating new papers at the alliance first or in the WB curation database and then importing them in. ...WB to Alliance. Paper approval and acquisition are the first steps in our curation process and we should make sure we've got a good plan in place before we ma1 KB (229 words) - 16:05, 15 July 2021
- == Themed Curation == = Curation Focus ideas for themed releases =2 KB (361 words) - 16:32, 17 October 2013
- [[Category:Curation]]608 bytes (98 words) - 18:31, 11 August 2010
- == Sequence Curation == ...base.org/group/caltech/topics topics]; The literature and large-scale data curation team at the California Institute of Technology.5 KB (757 words) - 01:45, 2 June 2014
- This project is broken down into three main sections: central database, curation, and website. ...gies to work with the new database system: Hinxton Curration tool, CalTech curation tool and Datomic API's for the website (Catalyst)5 KB (842 words) - 19:41, 17 February 2016
- ...y this page should point to a table that is a comprehensive display of the curation status of a given paper as well as a table that can show how far we've come *[http://tazendra.caltech.edu/~postgres/cgi-bin/curation_status.cgi curation status]6 KB (841 words) - 08:24, 24 October 2014
- In the context of first pass curation, SVMs are used to classify documents with respect to the type of data they770 bytes (117 words) - 13:08, 20 November 2009
- ...some paper types from the searches would more accurately reflect the real curation pipeline. [[Category:Curation]]2 KB (259 words) - 18:08, 16 August 2010
- Phenotype curation at WormBase entails the assignment of a phenotype term from the ''C. elegan ===Sources for allele phenotype curation===7 KB (1,148 words) - 23:02, 23 October 2014
- [[Category:Curation]]653 bytes (82 words) - 19:01, 10 August 2010
- == Genetomic / curation database ==2 KB (296 words) - 01:51, 5 September 2015
- Searches would return sentences, one page on the curation form per paper, if possible? ==Curation Workflows==5 KB (764 words) - 21:17, 18 March 2013
- 1. It appears on the first-pass curation checkout page. The paper is in grey until a pdf or document is available fo ...d for a specific data type is stored in postgres and can be mined from the curation status form [http://wiki.wormbase.org/index.php/New_2012_Curation_Status he3 KB (561 words) - 21:38, 15 August 2013
- [[First-pass to Curation]]<br> ...~postgres/cgi-bin/curator_first_pass.cgi Example of new curator first-pass curation.cgi]2 KB (241 words) - 23:04, 13 August 2010
- ** similar problem to redundancy during GO curation * different approaches between the databases for curation/prediction2 KB (213 words) - 18:30, 1 February 2018
- **3e i. Data Curation ***Does the resource provide documentation of the data curation process/deposition workflow? Please describe, with a url link to public doc2 KB (233 words) - 15:30, 21 July 2022
- ...nd Chris joined a Teaching Curation workshop to teach undergraduates about curation. Chris is currently processing the student submissions to remove redundanci ===WormBase Paper Curation charge===3 KB (525 words) - 17:20, 4 April 2024
- === LEGO Curation === * Curation Stats numbers spreadsheet6 KB (857 words) - 16:01, 2 October 2014
- [[Category:Curation]]271 bytes (29 words) - 22:34, 11 August 2010
- ...nformation we need for curation and search and retrieval functions for the curation form.2 KB (261 words) - 17:08, 16 April 2013
- ...ng that we have been thinking of how to rationalise is the TierI / Tier II curation split.''' '''PS - We should approach curation de novo and forget the history'''3 KB (564 words) - 17:27, 20 December 2012
- *Chris' will present flagging and curation pipeline overview *GO curation pipeline3 KB (349 words) - 19:25, 18 January 2013
- * Focusing on curation process (as opposed to publication process) ** Curation4 KB (544 words) - 16:22, 5 January 2017
- ==Curation analysis features== ...e || automating newmutant sentence identification/extraction for phenotype curation.6 KB (1,024 words) - 23:02, 13 August 2010
- * Summary of curation work - this summary should be curator driven, in some cases the summary wil |'''Data class/type'''||'''Curation focus'''||'''Postgres Tables'''<br>([[all OA tables | oa tables]])||'''Cura4 KB (580 words) - 18:13, 6 October 2017
- [[Category:Curation]]633 bytes (76 words) - 18:59, 10 August 2010
- [[Category:Curation]]635 bytes (76 words) - 19:01, 10 August 2010
- ...stion: do we want to take 'functional annotation' papers out of Textpresso/Curation pipelines? === Topic Curation ===6 KB (823 words) - 19:38, 2 January 2014
- * Need to chase up the 111 legacy pending curation gk alleles * Need to chase up the 766 legacy pending curation ok alleles2 KB (306 words) - 08:41, 7 June 2019
- [[Category:Curation]]533 bytes (81 words) - 23:09, 13 August 2010
- * <b>Gene-structure curation</b> * Process and pathway curation and display (Karen; 10 minutes)5 KB (644 words) - 22:02, 23 January 2013
- [[Category:Curation]]856 bytes (106 words) - 18:22, 16 August 2010
- = Specifications for Gene - GO Curation Status Form = ...ns protein-coding genes do not have one or more aspects (BP, MF, CC) of GO curation.3 KB (487 words) - 20:29, 18 March 2019
- ==Pick a paper and access the curation form== * Access the curation.cgi from the WBPaperID page itself4 KB (751 words) - 23:40, 13 August 2010
- ...there is a new model for GO annotations that will allow us to have all GO curation in WormBase. * GO curation model change2 KB (288 words) - 16:54, 4 December 2014
- [[Category:Curation]]395 bytes (55 words) - 21:11, 23 July 2013
- **Organization of categories by task? e.g. GO curation, Phenotype curation, Expression patterns, etc. **Curation Status - integration with curation databases - which ones?6 KB (901 words) - 19:21, 29 November 2011
- We also hold "curation data", for example the curation status of a paper, separately * Some possible changes to WB models to improve our paper, author, person curation pipelines3 KB (487 words) - 16:36, 18 March 2021
- * Curation status and effort. * Topic Curation – how we do this.5 KB (763 words) - 00:51, 19 September 2014
- [[Category:Curation]]600 bytes (92 words) - 18:46, 17 August 2010
- * Yesterday we (FlyBase, ZFIN, and WormBase) presented paper curation status tracking * WebPhenote is currently being built for human phenotype curation5 KB (715 words) - 15:49, 4 August 2016
- [[Category:Curation]]1 KB (159 words) - 18:33, 16 August 2010
- [[Category:Curation]]736 bytes (119 words) - 18:48, 17 August 2010
- === Topic Curation === * Working out pipeline for curation6 KB (974 words) - 17:28, 3 September 2014
- ...ir label in Postgres, were never intended to be put through the first pass curation pipeline. Going forward, any papers marked as such in the paper editor, sh [[Category:Curation]]2 KB (352 words) - 18:13, 17 August 2010
- * Curation tools (Collonade, editor) === Curation ===5 KB (741 words) - 10:57, 21 August 2015
- GO curation - Issue with connecting to species objects as the taxon I'd in the file is704 bytes (104 words) - 12:27, 28 January 2014
- ...ization will be used to continually train an HMM to identify sentences for curation from new papers. Each paper listed on this page will have one of three curation status tags: Done, Not Done, Partial8 KB (1,272 words) - 21:49, 19 December 2012
- [[Category:Curation]]412 bytes (47 words) - 15:19, 15 April 2011
- === Parasite Paper Pipeline and Curation Status Tracking === ...ussed last week the options for accurately tracking data type flagging and curation status for these papers4 KB (646 words) - 17:33, 1 September 2016
- Publishing and Curation Data Curation (Dealing with Supplementary Data)2 KB (283 words) - 19:20, 11 April 2014
- * Gary Williams -- ''Curation and analysis of nematode RNASeq data'' * Chris Grove -- ''Community phenotype curation''5 KB (696 words) - 13:32, 13 July 2018
- ...nt these need to be supported (or constrained) in the persistent store and curation tool ** Do we want/need to support curation to entities from non-canonical species?2 KB (348 words) - 17:52, 2 February 2023
- ...rs to textpresso as we get them into the database each week? For new paper curation it would be good to get papers when published into Textpresso, and in an au633 bytes (113 words) - 17:29, 19 April 2011
- === Community Curation Tracker CGI === ...tomate many steps of the e-mailing process to authors requesting community curation and to track those papers for which we've sent e-mails6 KB (926 words) - 16:49, 3 December 2015
- === Adding WormBase-Parasite Paper to the Curation Pipeline (Kimberly) === ...then incorporate parasite papers into downstream SVM flagging pipeline and curation status form5 KB (689 words) - 15:35, 7 April 2016
- first-pass curation should be clearly distinguished by a person ID (textpresso ''Resolve duplicates in FP Curation checkout pages''6 KB (1,045 words) - 21:14, 24 September 2010
- **#Gene related/biological data (curation decisions, what's excluded, why, time frames,etc) **#Genomic data (data related to species, assemblies, gene model curation etc)3 KB (511 words) - 18:54, 18 February 2021
- ...captures Gene::GO associateions and additional meta data associated with a curation event ...ype_of_construct sub tags as a controlled vocabulary is now imposed in the curation tool3 KB (337 words) - 16:15, 19 February 2015
- 3e i. Data Curation Does the resource provide documentation of the data curation process/deposition workflow? Please describe, with a url link to public doc4 KB (585 words) - 21:44, 7 July 2022
- === Diseases in Curation Status Form === * Once that is finalized, Chris and Juancarlos will help get Disease into the Curation Status Form as a data type10 KB (1,664 words) - 17:02, 4 December 2013
- ...by WB would need to be re-evaluated: continue to mine but share with other curation groups? no longer mine? new WB objects or pages? *Periodically review the form and add/remove data types and curation forms as needed6 KB (921 words) - 16:52, 4 January 2018
- *Capturing curation stats from the Curation Status form *What data types do we want to capture curation stats for that we are not currently?5 KB (850 words) - 15:32, 5 September 2013
- [[Category:Curation]]1 KB (159 words) - 18:57, 10 August 2010
- === Community curation of allele-phenotype === ** 88 out of 500 have some curation by community (~18%)5 KB (776 words) - 16:50, 7 January 2016
- ...or reviews the papers daily to select those that should be included in the curation pipeline and WormBase bibliography. [[Category:Curation]]3 KB (403 words) - 16:02, 27 March 2019
- * Creating a curation interface/tool: ...dition to primary data types (e.g. if we are focused on disease annotation curation, we will need to load genes, alleles, strains, etc. in addition to the dise5 KB (670 words) - 16:00, 5 August 2021
- ...yet have a mechanism for marking genes as comprehensively annotated in our curation database, so currently we're using the following criteria for assessing ann [[Category:Curation]]2 KB (379 words) - 18:52, 16 August 2010
- * Adding tags to ?Paper and ?Person to track community curation more explicitly in WormBase Chris - will continue work on refining the tags for phenotype curation.2 KB (347 words) - 17:44, 7 November 2019
- The paper editor is accessible either from the curation index page (click on the second link, paper_editor.cgi): http://tazendra.c *If the paper being entered is used solely as evidence for curation, e.g. a concise description or topic, and does NOT otherwise contain inform7 KB (1,204 words) - 18:58, 30 June 2014
- [[Category:Curation]]1 KB (200 words) - 17:59, 6 October 2017
- Chris Stark made a file available with BioGRID worm curation that has the following columns:823 bytes (120 words) - 21:03, 13 June 2011
- 1. Moving forward with Alliance-friendly Person pages for community curation/authorship tracking<br> *AFP community curation2 KB (325 words) - 15:24, 7 October 2021
- ...the standard HGNC human gene in disease model curation and other types of curation ** Karen: literature curation WG would be interested in having a central name server, looking for ideas3 KB (529 words) - 18:26, 16 July 2020
- ** No longer needed for concise description community curation tracker ...e Cecilia could link a WBPerson as corresponding author for a paper during curation?5 KB (873 words) - 14:41, 4 February 2021
- ...ng the cohesion of the AGR group members (common infrastructure and common curation efforts). ...and controlled vocabularies that each MOD is currently using for phenotype curation4 KB (574 words) - 01:54, 2 March 2018
- [[Category:Curation]]1 KB (173 words) - 17:55, 16 August 2010
- * Need a better way to report allele details; curation of alleles can happen at Caltech or Hinxton; need to discuss * Need to minimize/eliminate redundant curation effort3 KB (427 words) - 15:32, 1 August 2019
- == Topic Curation == * GO curation - Issue with connecting to species objects as the taxon I'd in the file is4 KB (617 words) - 17:14, 23 January 2014
- === WormBase curation === * Tim Schedl: WB needs to do more curation for phenotype and variation6 KB (903 words) - 15:28, 2 April 2020
- * Curation status freezes have been collected (daily?) * We need some trial LEGO curation to start working out the process8 KB (1,234 words) - 12:36, 4 June 2014
- Curation Status/Statistics Tool *Interactive form vs. static page showing curation/flagging statisitcs5 KB (843 words) - 17:26, 1 November 2012
- 5. MAT: Curation of other nematodes genetic maps; nomenclature standardization.764 bytes (110 words) - 15:53, 2 October 2014
- === Daniela starting on gene regulation curation === * Daniela working with Xiaodong to learn the curation process4 KB (604 words) - 15:28, 5 May 2016
- Effective Textpresso searches, and subsequent curation, require the most complete lists of gene and protein names possible. In addition, some types of curation may require matching gene names only, others matching protein names only, o5 KB (857 words) - 23:28, 23 August 2011
- === Community Curation Mass Email update === === SAB Literature Curation overview ===7 KB (1,062 words) - 14:41, 2 August 2018
- * LEGO Curation/Noctua Development === LEGO curation / Noctua Development ===6 KB (801 words) - 17:29, 2 July 2014
- ** Community curation (report numbers) === Curation pipeline comparisons ===9 KB (1,336 words) - 15:32, 2 June 2016
- [[Category:Curation]]1 KB (193 words) - 18:58, 10 August 2010
- * Workshop at NLM in days following TAGC about curation at scale (Kimberly attending and chairing session) ** Phenotype community curation?5 KB (747 words) - 16:31, 5 December 2019
- # We envision a pipeline whereby BioGRID and WB can exchange interaction curation information via mapping of the database objects between the two groups. #* Going forward, WB will use/incorporate parts BioGRID curation for physical Interactions (Will alter WB data Model)3 KB (391 words) - 22:13, 22 February 2011
- ** Props out to community on Phenotype curation849 bytes (126 words) - 16:46, 16 June 2017
- ...The goal is to explore the possibility of notifying users some of the new curation since the data freeze for the WS build. === Graphical curation tool update===4 KB (695 words) - 14:44, 3 December 2020
- * currently there is no curation planned * cooperate with UniProt on curation?2 KB (329 words) - 17:10, 6 August 2015
- === Updating Curation Status Form === === LEGO curation ===5 KB (843 words) - 16:32, 4 December 2014
- * MODs have different curation policies. For example, BioGrid has predicted protein-protein interactions. * The gene description curation tool developed by Juancarlos got good feedback. Juancarlos will add more fu4 KB (694 words) - 21:33, 19 December 2019
- * Common curation database: No concrete plan for common curation infrastructure but ideas have been thrown about....is it achievable in curr2 KB (376 words) - 16:20, 10 July 2017
- * populate the postgres table and the corresponding first pass paper curation form used by fp curators ...st pass curation list as having author data, therefore marked for priority curation6 KB (1,017 words) - 19:34, 2 December 2011
- Sequence Feature curation *Enhancer curation?7 KB (1,059 words) - 15:37, 1 August 2013
- ** Chris will look at curation goals, want ambitious but realistic === Incentives for community curation ===6 KB (910 words) - 15:23, 5 October 2017
- === NAR paper community curation? === * Not much has changed about community curation fundamentally since last NAR paper6 KB (912 words) - 01:40, 15 September 2017
- [[Category:Curation]]1 KB (166 words) - 19:35, 10 August 2010
- Gene Ontology Curation at TAIR ==Specifications for Curation Pipeline==14 KB (2,091 words) - 16:28, 9 December 2010
- === Movie curation === === Unfolded Protein Response curation - Pilot topic curation ===13 KB (1,983 words) - 16:40, 7 November 2013
- ...and use Curator_confirmed evidence (the same evidence we use for WB manual curation) == Themed Curation ==8 KB (1,246 words) - 15:52, 12 November 2013
- =Author Curation=1,002 bytes (141 words) - 23:09, 30 April 2011
- === Discussions on Value of Manual Curation === === Enhancer curation ===8 KB (1,225 words) - 16:33, 3 October 2013
- ...uthor first-pass tables and paper is placed in the pipeline for first-pass curation (Juancarlos will make a filter so these papers will be prioritized for firs [[Category:Curation]]3 KB (471 words) - 19:53, 19 April 2012
- **Be prepared to report on curation status of your data type and what we might need **first-pass curation could capture the corresponding author3 KB (407 words) - 01:16, 19 February 2011
- Title: WormBase 2019 - Data, Tools and Community Curation ...base, Model Organism data at the Alliance of Genome Research and Community Curation forms9 KB (1,364 words) - 15:39, 7 February 2019
- ===Literature Curation=== ...s can query and sort the list according to reference count, gene name, and curation status.13 KB (1,830 words) - 16:40, 13 December 2012
- *How much have we curated? What is our rate of curation? *Not caught up on RNAi and allele curation by end of this term6 KB (944 words) - 16:25, 1 November 2012
- [[Category:Curation]]1 KB (183 words) - 17:49, 17 August 2010
- ...ation forms could straightforwardly capture the slices of data that needed curation, and let acedb handle how the data relates to each other. ** Caltech PostgreSQL works really well for curation and is easy to adapt and expand, but none of the data relates to each other4 KB (743 words) - 12:22, 5 March 2021
- ===Sequence feature curation=== === Sequence Feature Curation ===9 KB (1,570 words) - 16:36, 21 September 2023
- **This is the code for the curation form. ...hat lists the names of the tables used for the previous version of the CCC curation forms.5 KB (817 words) - 15:11, 18 February 2014
- [[Category:Curation]]1 KB (205 words) - 17:49, 17 August 2010
- * Discussion regarding communication/coordination of curation effort (& data display) between WormBase and ParaSite * What curation/work will ParaSite be taking over that we (WormBase) can stop doing?7 KB (1,079 words) - 19:04, 6 November 2014
- * 48 papers requested received curation (2% response rate) === Community curation volunteers ===7 KB (1,020 words) - 15:33, 7 May 2020
- ===Improving display and recognition of community curation===985 bytes (154 words) - 21:08, 6 January 2022
- * Train students to do curation on phenotype and GO. * Human genes should be referenced as HGNC ID objects in WB curation database.3 KB (410 words) - 18:23, 24 March 2020
- [[Category:Curation]]2 KB (259 words) - 23:32, 13 August 2010
- '''[[Textpresso for WormBase Curation]]''' This page will serve as a platform to coordinate the automated curation efforts of Textpresso for WormBase.17 KB (2,401 words) - 22:36, 29 November 2017
- [[Category:Curation]]1 KB (164 words) - 23:35, 14 February 2011
- **Picture curation ****SVM form (in development) vs Curation Status form (needs work/update); can generate numbers for coverage to displ7 KB (1,074 words) - 17:19, 4 October 2012
- # Should not have paper editor tag--Curation flags E-mailed_community_gene_descrip ...ipt that connects genes from abstracts to papers or from manual first pass curation13 KB (2,062 words) - 14:01, 4 August 2017
- ...class summaries are a new data type started in May 2011. The goal of this curation is to clarify what WB gene classes are, beyond a simple definition of the a ...built, these searches and sentences can be automatically uploaded into the curation form.'' <br>4 KB (704 words) - 18:19, 28 June 2011
- Curation Status Form *It is important to decouple validation from curation, so we can capture both7 KB (1,123 words) - 16:39, 6 December 2012
- === Strategies for GO-CAM (Noctua) curation === * Proposal for curation report page (Kimberly)8 KB (1,229 words) - 15:31, 1 June 2017
- ** Raymond (SObA), Chris (Community curation), Mary Ann, Wen would like to go === LEGO curation ===9 KB (1,377 words) - 16:44, 2 February 2017
- infrastructure - issues - needs - curation database - interaction with the db * curation: status and plans (Chris G):4 KB (691 words) - 17:16, 21 June 2018
- BioGRID curation coordination (Kimberly) *Still need to work out some details of curation sharing/prioritization5 KB (752 words) - 17:07, 7 July 2011
- ...type curation status tracker, including statistics. Currently used for SVM curation, could be useful for other things too. * pre-release curation of Brugia is finished5 KB (752 words) - 18:55, 6 December 2012
- == Curation of Antibodies in WormBase ==6 KB (914 words) - 15:39, 24 September 2007
- * Use for all literature curation in future? === Community Curation ===6 KB (927 words) - 14:23, 10 August 2017
- [[Category:Curation]]2 KB (220 words) - 00:19, 21 January 2011
- * We should bring data/feedback on community curation form usage ...lled "blastomere", "exprmosaic", "geneticmosaic", "laserablation" in the Curation Status form, there has been data flagged by authors for these datatypes ( h2 KB (379 words) - 16:39, 1 October 2015
- [[Category:Curation]]1 KB (196 words) - 19:48, 14 January 2013
- * Raymond, Valerio (community curation), Wen (Simple mine)787 bytes (115 words) - 04:11, 4 November 2021
- * Currently there is a ~redundant curation pipeline; considering pulling person info into lab class * 45 minutes curation talk to SAB; Chris volunteered; anyone else interested?8 KB (1,189 words) - 14:10, 5 July 2018
- [[Category:Curation]]1 KB (171 words) - 18:48, 17 August 2010
- *[http://tazendra.caltech.edu/~postgres/cgi-bin/curation_status.cgi Curation status form] has lists, but not completely up-to-date. ! Number of papers flagged manually (from curation status form)5 KB (746 words) - 18:57, 10 August 2010
- Species in Phenotype curation Curation Status Form10 KB (1,553 words) - 18:04, 7 February 2013
- ** How literature info gets into WormBase? Curation process? === GO curation ===12 KB (1,809 words) - 16:33, 1 March 2018
- ...sso Cellular Component category terms and their mapping, based on previous curation, to a GO term and GO ID. ...in red. Note that the Component - GO term index is based on all previous curation data from the old form that didn't restrict how GO terms were entered. The11 KB (1,765 words) - 15:10, 18 February 2014
- === Allele-Phenotype Form / Community Curation === * We would like to encourage participation in the community curation as much as possible6 KB (982 words) - 15:33, 2 July 2015
- * Cecilia will take over laboratory curation * Sequence feature curation (literature-based, small-scale) will move to Caltech10 KB (1,586 words) - 15:30, 2 November 2017
- ** Add a number on the amount of curation we are going to do ** Phenotype community curation part added by Daniela but numbers are missing. Chris will add them.6 KB (982 words) - 16:54, 1 September 2022
- [[Category:Curation]]2 KB (281 words) - 18:56, 10 August 2010
- Slight modification to Curation Status Form *Changes documented on the [[New_2012_Curation_Status | Curation Status Form Wiki]]3 KB (436 words) - 17:59, 11 July 2013
- * Reliable cell marker gene curation for single cell transcriptome data/FACS-transcriptome datasets. A gold-stan Q3: Tradeoff of more curation versus more tools for analysis/display?11 KB (1,649 words) - 16:10, 19 July 2018
- === Phenotype Curation Requests === === Variation curation ===7 KB (989 words) - 16:08, 5 February 2020
- *For curation, we could import only the BFO and RO ID spaces of RO, but include all of th == Alliance Working Group on Literature Curation Pipelines ==11 KB (1,898 words) - 16:43, 7 June 2018
- ...s. For the purposes of semi-automating this area of GO Molecular Function curation we need a training set that is homogeneous, at least in terms of enzymatic1 KB (178 words) - 00:04, 2 February 2011
- * '''Curation''' ** How can we work with other MODs on curation strategy?8 KB (1,130 words) - 13:27, 4 February 2016
- ...uthor first-pass tables and paper is placed in the pipeline for first-pass curation (Juancarlos will make a filter so these papers will be prioritized for firs * populate the postgres table and the corresponding first pass paper curation form used by fp curators7 KB (1,133 words) - 20:36, 23 July 2013
- * Karen will review the molecule curation with other curators at the IWM * Want to push community/automated curation, with curators laying foundation of data models, forms7 KB (1,010 words) - 17:08, 4 May 2017
- ...ude interactive sessions on Overview/updates of WB and Alliance, Community curation efforts--Acknowledge system, other forms?, MicroPublication (?), JBrowse, a **Community curation--updates to AcKnowledge system, other forms? There will be a microPub booth3 KB (503 words) - 21:00, 6 January 2023
- === Pathway curation: metabolites === === Community Curation Portal ===8 KB (1,305 words) - 23:24, 3 June 2015
- Expression Cluster data curation *Trying to capture "Certain", "Uncertain", and "Partial" curation tags7 KB (1,117 words) - 16:39, 4 August 2011
- [[Category:Curation]]2 KB (263 words) - 17:49, 17 August 2010
- * Have a 'Curation News' section, link from front page. Would have the monthly increases to d1 KB (203 words) - 22:50, 11 November 2010
- === Community Curation paper === === Soliciting community curation ===10 KB (1,475 words) - 16:57, 5 November 2015
- ...iti, California Institute of Technology, How can you contribute? Community curation and tools, and the author-first-pass (AFP) pipeline ** Should probably go with daily snapshots for curation purposes (frequent updating for new/deprecated terms)5 KB (670 words) - 15:31, 3 June 2021
- * Will need to consider re-allocation of curation responsibilities * Molecule curation in maintenance mode, may require updating of mapping terms with our interna10 KB (1,527 words) - 15:32, 6 April 2017
- * Curation, organisation, display and querying of RNASeq data (FlyBase have moved ahea ...Data curators should also look at results as it should help us prioritize curation. For example: how much effort we devote to non C. elegans species.4 KB (684 words) - 19:43, 5 December 2015
- *A lot of work to get database and history maker/curation tool working *Just able to start serious curation this week (with curation tool)4 KB (617 words) - 17:01, 19 July 2012
- *Testing now with test curation *Should go live next week for official curation7 KB (1,158 words) - 17:20, 3 May 2012
- ...''Is there a way this model can be approved at the beginning of the WS244 curation so we can use the full two months to coordinate the changes? '' ** If yes, how to populate that info? Curation or automatically (via orthology)? The latter may miss some high-profile pro5 KB (796 words) - 21:05, 10 March 2014
- | non-nematode; Author-Person (pre-dated current Author-Person curation criteria) | Used in human manual GO curation (Protein2GO)4 KB (572 words) - 17:01, 13 January 2021
- #*How to enter data through the cgi and how to parse in data from RNAi curation. We also went over the dump procedures. Information can be found at http:1 KB (219 words) - 22:52, 12 January 2011
- *Lynn Schriml, The Disease Ontology: an evolving tool for Disease Curation and Annotation. *Sylvain Poux, Expert curation in UniProtKB: a case study in dealing with conflicting and erroneous data7 KB (907 words) - 19:36, 11 April 2014
