Difference between revisions of "WBConfCall 2015.11.05-Agenda and Minutes"
From WormBaseWiki
Jump to navigationJump to searchm |
m |
||
| Line 11: | Line 11: | ||
Re-worked from an earlier version which was based on Graphviz. It is to be made into a widget on Gene pages, immediately below the Phenotypes widget, providing a summarized view of a gene's annotated phenotypes in an ontology-aware manner. | Re-worked from an earlier version which was based on Graphviz. It is to be made into a widget on Gene pages, immediately below the Phenotypes widget, providing a summarized view of a gene's annotated phenotypes in an ontology-aware manner. | ||
| − | = WS252 = | + | == WS252 == |
* 5 model changes | * 5 model changes | ||
* Paul will use GitHub to commit edits to the models.wrm | * Paul will use GitHub to commit edits to the models.wrm | ||
| Line 21: | Line 21: | ||
* Models freeze by Friday 13th | * Models freeze by Friday 13th | ||
| − | = WS252 build = | + | == WS252 build == |
* Upload end of first week of December (4th) | * Upload end of first week of December (4th) | ||
* WS252 build: due at end of first week in January (8th) | * WS252 build: due at end of first week in January (8th) | ||
* Release schedule updated | * Release schedule updated | ||
| − | = TF binding sites = | + | == TF binding sites == |
| + | * We would like to be able to determine a list of potential target genes for transcription factors | ||
| + | * Todd will load "TF binding site" sequence features to WormMine | ||
| + | * It is not clear if we can perform this query with Intermine | ||
Revision as of 17:11, 5 November 2015
Agenda
- WS252 models deadline
- SObA phenotype graph re-worked using cytoscape.js
- Generating lists of transcription factor target genes
Minutes
- SObA (Summary of Ontology-based Annotation) graph for phenotype: examples
daf-3 <http://131.215.12.204/~azurebrd/cgi-bin/amigo.cgi?action=annotSummaryCytoscape&focusTermId=WBGene00000899> daf-2 <http://131.215.12.204/~azurebrd/cgi-bin/amigo.cgi?action=annotSummaryCytoscape&focusTermId=WBGene00000898>
Re-worked from an earlier version which was based on Graphviz. It is to be made into a widget on Gene pages, immediately below the Phenotypes widget, providing a summarized view of a gene's annotated phenotypes in an ontology-aware manner.
WS252
- 5 model changes
- Paul will use GitHub to commit edits to the models.wrm
- Molecule model (Karen)
- Expression pattern, for managing RNA-seq data (Daniela)
- Housekeeping: Last reviewed CDS,transcript (Gary W)
- Housekeeping: Add UNIQUE tag to transcript to gene, 1 gene per CDS
- Pathogen tag in #Phenotype_info
- Models freeze by Friday 13th
WS252 build
- Upload end of first week of December (4th)
- WS252 build: due at end of first week in January (8th)
- Release schedule updated
TF binding sites
- We would like to be able to determine a list of potential target genes for transcription factors
- Todd will load "TF binding site" sequence features to WormMine
- It is not clear if we can perform this query with Intermine
