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- Archived Interaction documentation may be found [[Gene_Interaction/archive | here]] ==Interaction Curation==53 KB (6,521 words) - 20:51, 7 March 2019
- This class holds 3 types of interaction data: 1) ''Genetic Interaction''1 KB (143 words) - 21:51, 11 August 2010
- // ?Interaction class for Andrei WBInteraction00000001 // Replaces the old interaction model. The main enhancements are information about the interactors and the12 KB (1,431 words) - 19:06, 20 March 2012
- =Interaction Curation= ===upload Gary and Chris RNAi-based interaction objects into OA===50 KB (5,228 words) - 15:10, 21 July 2017
- ...Gunsalus' group at NYU. This tool is used by Wormbase to display Wormbase interaction data. ...er at this time and is installed manually. After it is installed, Wormbase interaction data needs to be dumped from AceDB and loaded to MySQL. Finally, the data i7 KB (1,133 words) - 17:52, 16 August 2010
- ...jects in Wormbase: Interaction and YH. Interaction class holds a number of interaction types (regulation, predicted, etc.). Objects in the YH class are of Y2H and ...isplay in the gene page aims to provide a consolidated compact view of the interaction objects in Wormbase. It replaces the previous views.2 KB (328 words) - 23:39, 13 August 2010
Page text matches
- ====i) ?Interaction and #Interactor_info==== ====?Interaction====321 bytes (39 words) - 13:06, 17 August 2012
- ...see 3 model change, 2 effecting the ?Variation Class and on effecting the ?Interaction class === ?Interaction ===2 KB (198 words) - 15:32, 19 September 2013
- This class holds 3 types of interaction data: 1) ''Genetic Interaction''1 KB (143 words) - 21:51, 11 August 2010
- = Agenda and Notes - BioGRID and WB interaction meeting.= ;item 1 - Mapping of Physical interaction terms/types between WB and BioGRID.1 KB (240 words) - 22:36, 22 February 2011
- ;item 1 - Interaction Display ;item 1 - Interaction Display1 KB (219 words) - 22:52, 12 January 2011
- ...jects in Wormbase: Interaction and YH. Interaction class holds a number of interaction types (regulation, predicted, etc.). Objects in the YH class are of Y2H and ...isplay in the gene page aims to provide a consolidated compact view of the interaction objects in Wormbase. It replaces the previous views.2 KB (328 words) - 23:39, 13 August 2010
- === ?Interaction model (Chris) === === ?Interaction, ?Expr_pattern, ?Antibody, ?WBProcess, and ?Construct (Chris) ===1 KB (198 words) - 17:01, 16 April 2015
- '''This cycle we see an extensive reworking of the Interaction class to allow for the better capture of Genetic interactions''' There are now 3 modules that detail the annotation of the genetic interaction.758 bytes (122 words) - 12:23, 26 July 2017
- // ?Interaction Interaction ?Interaction XREF WBProcess #Evidence2 KB (207 words) - 14:11, 4 March 2011
- ;item 2 - GO terms on interaction display109 bytes (14 words) - 22:55, 12 January 2011
- *Complicated change as needs interaction adding in lots of classes. Interaction ?Interaction3 KB (475 words) - 14:53, 19 February 2013
- [https://bitbucket.org/xdwang/ggi_oa/wiki/Home gene gene interaction OA wiki]77 bytes (13 words) - 22:51, 17 December 2010
- :: Remove interaction based phenotypes from existing tables-→ new table ;item 3 - Interaction Model (slides 4-5, attached .ppt in documents distributed section)3 KB (475 words) - 22:50, 17 December 2010
- ====='''?Interaction'''===== Interaction_phenotype ?Phenotype XREF Interaction //existing tag2 KB (260 words) - 11:11, 27 July 2012
- ...tion data]] - ''Wormbase N-Browse installation and preparation of Wormbase interaction data'' ...action Display in the Gene Page|Interaction display in the gene page]] - ''Interaction Display in the Gene Page''2 KB (293 words) - 22:32, 24 December 2010
- ==?Interaction==166 bytes (25 words) - 15:02, 5 March 2011
- // ?Interaction Interaction ?Interaction XREF WBProcess #Evidence3 KB (275 words) - 01:07, 6 February 2014
- = Agenda - BioGRID and WB interaction meeting.= ;item 2 - Mapping of interaction terms between WB and BioGRID. (Attached Excel and PowerPoint)3 KB (391 words) - 22:13, 22 February 2011
- == ?Interaction == 1) IN (Chris) I'd like to add the following tags to the main ?Interaction model: -4 KB (641 words) - 15:23, 19 June 2012
- ...nteraction datasets since both genes are involved in large scale datasets. Interaction widget is the most time consuming widget, with the most problems, which cou973 bytes (144 words) - 18:13, 6 September 2012
- === ?Interaction model changes: === ?Interaction3 KB (337 words) - 16:15, 19 February 2015
- // ?Interaction class for Andrei WBInteraction00000001 // Replaces the old interaction model. The main enhancements are information about the interactors and the12 KB (1,431 words) - 19:06, 20 March 2012
- === ?Interaction ===2 KB (227 words) - 15:59, 5 September 2013
- |gene regulation||Gene regulation||grg_||Chris Grove||Interaction with Regulatory|||| ...al<br>Interaction with Genetic<br>Interaction with Predicted<br>Paper with Interaction||||4 KB (580 words) - 18:13, 6 October 2017
- ** API/Role/Interaction.pm *** Contains the API methods needed to return the interaction data in the format needed for the Cytoscape displays1 KB (162 words) - 15:21, 28 March 2013
- Interaction ?Interaction2 KB (200 words) - 08:23, 5 October 2010
- Interaction ?Interaction XREF Molecule_interactor // Chris WS244 Interaction ?Interaction XREF Molecule_interactor // Chris WS2446 KB (543 words) - 23:29, 15 March 2016
- - subj: Addition to interaction Model (4.20) Wei wei's interaction data (emails from paul and andrei)1 KB (196 words) - 18:50, 11 August 2010
- '''ALSO''', WBPaper00004301 has Interaction objects associated with it; these should be removed is now handling the interaction data, Xiaodong? Perhaps she can correct this in the .ace file.2 KB (248 words) - 22:57, 13 August 2010
- ?Interaction Interaction_phenotype ?Phenotype XREF Interaction //existing tag4 KB (503 words) - 08:30, 22 June 2012
- Interaction model change *Triage by cases that come up for interaction or gene regulation events4 KB (695 words) - 15:26, 7 June 2012
- PPI (Protein-Protein Interaction) * Need type of interaction (physical AND proteinprotein), reference, and each gene listed4 KB (556 words) - 12:45, 21 May 2019
- * Interaction Working Group is talking about getting WormBase data into AGR * overlap between Gene Regulation / Interaction needs coordination2 KB (213 words) - 18:30, 1 February 2018
- KH - Some Caltech data seems to be missing from the WS233 upload (mostly Interaction data) KY - An interaction person will look into it.1 KB (228 words) - 16:54, 6 July 2012
- * Updates to classic interaction and interaction data compile1 KB (140 words) - 21:53, 16 February 2011
- * ?Interaction and #Interactor_info - Chris Grove ...hash and add an "Antibody_remark" field with a "?Text" entry to the main ?Interaction model.1 KB (202 words) - 12:30, 12 April 2012
- === New interaction Venn diagram tool === * Venn diagram shows how various interactors have multiple interaction types with a common focus gene4 KB (694 words) - 21:33, 19 December 2019
- '''Genetic interaction''' '''Physical interaction'''2 KB (315 words) - 03:38, 3 June 2015
- === Interaction-Gene associations === * Variations should be pushed from #Interactor_info into Interactor tag of ?Interaction model4 KB (633 words) - 19:09, 6 January 2015
- ...bsite/issues/6869 Interaction external link outs to BioGRID not working on interaction pages]2 KB (263 words) - 15:49, 4 April 2019
- ...t phenotype (IMP), Inferred from direct assay (IDA), Inferred from genetic interaction (IGI), etc. Clicking on the evidence code links to the Gene ontology consor * IGI=Inferred from Genetic Interaction3 KB (502 words) - 18:28, 17 August 2010
- ?Interaction700 bytes (98 words) - 09:44, 4 October 2010
- Physical Interaction model *Separating out from general "Interaction" model4 KB (650 words) - 17:08, 1 September 2011
- **?Interaction model "Rearrangement" tag needs an XREF and ?Rearrangement model needs an " New Interaction OA6 KB (983 words) - 18:02, 12 July 2012
- ===?Interaction and ?Feature models=== '''?Interaction model:'''7 KB (881 words) - 15:46, 21 November 2013
- Additional level of data capture within the Interaction model for Physical Interactions. ?Interaction2 KB (324 words) - 17:41, 2 June 2016
- Interaction ?Interaction3 KB (312 words) - 15:14, 15 July 2010
- * interaction network not working [https://github.com/WormBase/website/issues/8429 [#8429864 bytes (136 words) - 15:41, 21 October 2021
- Interaction dumping script *Issues of mapping interaction types: WB -> BioGRID vs. BioGRID -> WB8 KB (1,282 words) - 17:08, 7 July 2011
- ...s specific for single mutants and not phenotypes dues to interactions (see interaction phenotypes section below). ===Interaction phenotypes===7 KB (1,148 words) - 23:02, 23 October 2014
- | Interaction||Chris1 KB (200 words) - 17:59, 6 October 2017
- Textpresso Interaction Sentences *Need to discuss what sentences should be kept as adequate evidence of interaction and placed in remarks5 KB (847 words) - 17:49, 1 March 2012
- * Interaction tabs not loading https://github.com/WormBase/website/issues/6473 infrastructure - issues - needs - curation database - interaction with the db4 KB (691 words) - 17:16, 21 June 2018
- Interaction model * Interaction model still being tweaked6 KB (903 words) - 16:37, 5 January 2012
- * [[WormBase Model:Interaction|Interaction]]4 KB (568 words) - 11:06, 23 May 2011
- ...Gunsalus' group at NYU. This tool is used by Wormbase to display Wormbase interaction data. ...er at this time and is installed manually. After it is installed, Wormbase interaction data needs to be dumped from AceDB and loaded to MySQL. Finally, the data i7 KB (1,133 words) - 17:52, 16 August 2010
- Interaction ?Interaction XREF Paper Interaction ?Interaction XREF Paper10 KB (928 words) - 18:34, 2 May 2011
- * Extracting small molecule interaction data ** Any way to systematically extract small molecule interaction data? Specifically, I am looking for data about small molecules that can su3 KB (432 words) - 17:19, 18 January 2024
- ==== Unified Interaction model - Chris & Kimberly ==== ...l from the 31st of January contains the details, but basically it affects ?Interaction, and merges the ?Gene_regulation,8 KB (879 words) - 09:32, 3 February 2012
- Interaction ?Interaction XREF Paper5 KB (471 words) - 16:07, 4 October 2010
- ...ting for a genetic interaction. To distinguish these, can we include the ?Interaction ID in the With/From column along with the WBRNAi and WBPhenotype IDs? ...es assign the wrong GO term if these terms are assigned based on a genetic interaction experiment, i.e. we get the directionality wrong.7 KB (1,164 words) - 17:54, 19 February 2015
- '''11/20/09''' ACTION ITEM: Add Molecular Function binding/physical interaction categories to FlyBase implementation.904 bytes (127 words) - 18:02, 21 July 2011
- New ?Interaction model ...and speak to web team about new model before officially incorporating new ?Interaction model7 KB (1,070 words) - 17:47, 1 March 2012
- *Interaction file upload took several hours *Can objectify the Interactor_info to be a tag in the main ?Interaction model7 KB (1,019 words) - 20:58, 12 April 2012
- :interaction/interaction-summary (18885 values, 0 evidence) :wbprocess/interaction (1615 values, 0 evidence)</nowiki>7 KB (604 words) - 18:21, 11 November 2014
- ** The "Historical_gene" tag has been added to the ?Interaction, ?Transgene, ?Antibody, ?Expr_pattern, and ?WBProcess models1 KB (168 words) - 16:06, 6 June 2013
- * Need to add "Construct" under list of "Detection methods" in the ?Interaction model * Interaction OA dumper will need to be updated to accommodate constructs and transgene c4 KB (622 words) - 16:47, 6 August 2014
- === Physical Interaction Curation === * We have begun physical interaction in Interaction OA8 KB (1,120 words) - 16:19, 5 March 2015
- Interaction meeting review *Genetic interaction examples5 KB (752 words) - 17:07, 7 July 2011
- Interaction ?Interaction XREF WBProcess #Evidence4 KB (503 words) - 00:51, 7 November 2013
- * Chris: has requested a change to the Interaction model. This change is to hold new data. He will revert things for now. * Kevin: Matt is working on querying the Interaction data in Datomic. This is a difficult problem. Chris Grove offered to help i2 KB (403 words) - 16:33, 6 April 2017
- * Working with Interaction Workgroup750 bytes (89 words) - 21:57, 5 January 2011
- ...hality or behavioural responses - chemotaxis etc) or influences phenotype (interaction)1 KB (175 words) - 00:44, 27 August 2015
- * Affects ?Interaction, ?Expr_pattern, ?Antibody, ?Construct, and ?WBProcess * Gene Function & Interaction chapter almost complete7 KB (1,058 words) - 15:32, 2 April 2015
- ====How to get the unique email address for email/git interaction ====5 KB (845 words) - 17:00, 21 March 2022
- <td>Interaction</td> <td>[http://dev.wormbase.org:8023/species/c_elegans/interaction/WBInteraction0500570 WBInteraction0500570]</td>8 KB (1,190 words) - 23:28, 12 March 2012
- *WormBase predicted interaction objects can be updated simply via link to Gene Orienteer *If we want a live interaction browser, we would need to pull the data into the build process4 KB (612 words) - 17:13, 1 December 2011
- Interactor ?Interaction Interactor ?Interaction13 KB (1,341 words) - 20:12, 22 September 2015
- *Interaction model change in the works1 KB (205 words) - 16:55, 17 May 2012
- Genetic Interaction ontology Interaction object displays on WormBase website7 KB (1,158 words) - 17:20, 3 May 2012
- * cross MOD interaction1 KB (155 words) - 17:01, 19 November 2015
- *?Interaction2 KB (297 words) - 09:58, 21 May 2013
- interaction - - - -2 KB (243 words) - 20:29, 25 May 2011
- === Interaction changes === *Interaction model changed to update genetic interaction terms8 KB (1,225 words) - 16:33, 3 October 2013
- Interaction ?Interaction7 KB (712 words) - 10:40, 4 October 2010
- ...ry contains two bar-separated fields: gene name and interaction types. The interaction types are separated with semicolons.6 KB (847 words) - 23:51, 9 May 2023
- ==== Unified Interaction model - Chris & Kimberly ====5 KB (800 words) - 10:09, 17 February 2012
- === Phentoype-association file: Attributing phenotypes to genes via genetic interaction === ...otype association file currently only on direct phenotype annotations, not interaction-based phenotypes6 KB (906 words) - 21:38, 30 September 2015
- ...ome/postgres/work/citace_upload/gene_regulation/use_package.pl ||Paper<br> Interaction<br> RNAi<br> Antibody<br> Transgene<br> Variation<br> Rearrangement<br> Exp ...rove, Gary Schindelman, Kimberly Van Auken, Karen Yook|| Only one PGID per Interaction object. Some physical interactions are currently in BioGrid and will need20 KB (3,050 words) - 21:01, 19 April 2017
- *Murky genetic interaction curation? *When in doubt, curate as "genetic interaction"7 KB (1,103 words) - 18:28, 5 May 2011
- |Can you list interactions? <br>http://dev.wormbase.org/db/gene/interaction?list=WBGene00001188 | Compile interaction resources3 KB (568 words) - 16:43, 17 February 2011
- * development for interaction display and data compile910 bytes (120 words) - 21:53, 19 January 2011
- ....bio.nyu.edu/NBrowse2/NBrowse.html N-Browse], designed for displaying gene interaction networks.2 KB (256 words) - 22:25, 5 August 2019
- =Interaction Curation= ===upload Gary and Chris RNAi-based interaction objects into OA===50 KB (5,228 words) - 15:10, 21 July 2017
- ** Ligand-receptor expression informed cell-cell interaction2 KB (247 words) - 17:22, 4 May 2023
- Physical interaction curation *On interaction OA (Tab2) physical interactions; 'Colocalizes', etc.5 KB (843 words) - 17:26, 1 November 2012
- * OA and its interaction with TC **the interaction configuration of the OA6 KB (901 words) - 19:21, 29 November 2011
- 5. [https://github.com/WormBase/website/issues/3640 3640], mig-5 interaction widget times out2 KB (277 words) - 20:30, 5 March 2015
- *Made headway on genetic interaction organization *Add "Additive" type term and "No Apparent Interaction", etc.9 KB (1,302 words) - 16:38, 2 June 2011
- * WB in best poss funding position, but lots of attention on mods, for 2 way interaction2 KB (274 words) - 15:59, 14 May 2018
