Phenoscape web UI

Phenoscape web UI development plan.

2009

Mockup changes to existing interfaces required to incorporate 1/5/09 team feedback on existing interface components
Taxon search interface Done
- Mockup interface using dummy data within web application - request group feedback
  - Front page search interface and results table - may include intermediate results summary page
Interface demo and feedback session - DECAP meeting, Feb. 27, 2009 Done
- Present screenshots and mockups
- Possible live demo depending on data service performance progress
  - Services should return in no more than 2 seconds
  - Evaluate feasibility 2 weeks before meeting
Mockup publication data interface within web application Done
Mockup “splashy” search entry page - we should have a more graphically capturing entry gateway for exploring the data content
- One of the following:
  - Hierarchical term explorer
  - Visual explorer, using schematic drawings (“the prototypical fish”)
  - Visual explorer using 3D scans of catfish (and eventually zebrafish when done).
- Should explore various prototypes of these ideas using HTML mockups and get feedback from project team
Mockup taxonomy-based tree-mapped data perspective
- View taxonomic phenotype annotation results organized by a phylogenetic tree
- Group phenotypes as simplistic union of descendant nodes, rather than ancestral reconstruction
- Use taxonomy as basis for phylogenetic tree
- Develop HTML mockups in web application

Incorporate 1/5/09 team feedback on existing interface components In progress
- Anatomy term search results - reorganize according to sketch
- Gene search results - reorganize according to sketch
- Taxonomic phenotype results page - add Order column for taxonomic grouping
- Present various phenotypic results grouped by custom “character slim” done
  - Requires slim development by team members (Wasila, Paula) Done–Pmabee@usd.edu 12:20, 20 March 2009 (EDT)done and service implementation by Cartik
Taxon search interface
- Design data service schema to be implemented by Cartik
- Implement interface using live data service once developed by Cartik

Implement taxonomy-based tree-mapped data perspective
Implement appropriate scalable deployment of web application Done
- Multiple application instances and load balancing Done

Develop overall site revision plan based on feedback from Knowledgebase Beta 1 interface [Done]
Knowledgebase 2.0 site revision mockup testing [Done]
- Present mockups to naive users in Eugene, Oregon, February 16-17 [Done]
- Revise mockups using testing session user feedback [Done]
Develop 2.0-beta implementation plans with feedback from Phenoscape stakeholders [Deferred]

Annotation search results pages with editable data filters
Working taxonomy cladogram data interfaces
Complete mockups of advanced query interfaces
Phenoscape meeting at Field Museum, Chicago
- Conduct user feedback sessions with mockups of forthcoming interfaces, and live testing of implemented pages [Done]
- Write-up results of feedback and proposed changes
Generate permanent unique ID for each publication [Done]
Enter unique IDs for publications into Endnote [Done]
Data imported KB via Endnote XML files [NOTE: This part was done quite a while ago. However, a slight modification needs to be made to use the new unique IDs for publications]
- citation information as individual semantic pieces (individual authors, title, journal, etc.) - [Deprioritized]
- abstract
- DOI if available
Investigate importing previous names of ZFIN genes
Gene symbol as primary name - [NOTE: This was the old status quo before we decided to the display the complete name of the gene, can easily revert to this.]

Term search results pages incorporating ontology tree browser
Publication pages with citation and abstract, links to publications from other data types
Advanced query interface, data download implementation
type of mutation/defect producing phenotype result (requires feasibility investigation)
ZFIN publication ID for each phenotype annotation
import common names for taxa