Changes between Initial Version and Version 1 of PombasePlanningMeetingAgenda20111003


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Timestamp:
Nov 21, 2011, 10:48:57 AM (9 years ago)
Author:
gomidori
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  • PombasePlanningMeetingAgenda20111003

    v1 v1  
     1
     2
     3= Agenda =
     4
     5 == Review of Action Items 15th August ==
     6
     7 * CC Midori and Val on all Jira items (Dan/Mark?)
     8
     9 * Alert curators when current dataset ready for testing (Mark)
     10
     11 * Set up a phenotype meeting to describe phenotype model (input from Val/ Midori/Kim)
     12   * DONE See this meeting Agenda below
     13
     14 * Need to coordinate dataset for public release with Ensembl genomes release (Kim/Mark/Dan)
     15
     16 * FYPO will be submitted to OBO foundry shortly which should trickle through to OLS in due course (Midori)
     17
     18 * Ensembl group tell us which format specification for various HTP datasets (Dan/Paul/Mark?)
     19
     20 * Load external GO data into Chado as a priority (Kim)
     21   * GO data is now loaded, but filters are not implemented (complicated by annotation extensions. Kim will prioritise this when he starts back in October)
     22
     23 * Annotate telomere features (Curation group)
     24   * NO progress, not a priority at present
     25   * Transferred to SF tracker https://sourceforge.net/tracker/?func=detail&aid=3407281&group_id=65526&atid=2096387
     26
     27 * Follow up desktop sharing software (circulate possibilities, do free trial?) (MIdori)
     28
     29 * check university standard providers of conference lines etc with Gos (Val) (DONE) Gos has a BT MeetMe? account
     30
     31 * Organise fortnightly conference call (DONE)
     32
     33 * Ask Henning Hermjakob about possibility of OLS as webservice to attach annotations to (?)
     34
     35 * Finish NAR paper (All)
     36   * DONE
     37
     38 == Agenda Items ==
     39
     40
     41 * Midori will present phenotype model for Chado
     42
     43    * including what information will be stored in the allele record
     44    * annotation genotypes (we can currently capture information for single deletions only)
     45
     46 * Annotation extensions
     47    * circulate proposal for reformatting this data on the gene pages
     48
     49 * Discuss confusing menu options in Ensembl view.
     50
     51   * seems odd to have links to data types we will not have
     52   * things which will be curated on the gene pages:
     53      * external references
     54        * general Identifiers
     55        * oligo probes (what is this in the context of an external ref?)
     56      * regulation (what will be under here?)
     57      * ontology
     58      * protein information
     59      * EBI protein summary
     60      * protein structure (external link)
     61      * ID history (Ids are stable, what would this show?)
     62
     63   *  similar issue with "downloads"     
     64     
     65
     66
     67 * Usage statistics, where can we view these?
     68
     69 * Critical items for "preview" announced, running alongside GeneDB.
     70    (Need to be logged in to Jira)
     71   Midori has been doing lots of testing, reporting, tidying static pages
     72   * Mark has closed a whopping 139 Jira items
     73     http://www.ebi.ac.uk/panda/jira/secure/IssueNavigator.jspa?reset=true&pid=10280&status=6
     74    Now only have 16 "critical" OR "blocker"
     75    * http://www.ebi.ac.uk/panda/jira/secure/IssueNavigator.jspa?reset=true&pid=10280&priority=1&resolution=-1
     76    * http://www.ebi.ac.uk/panda/jira/secure/IssueNavigator.jspa?reset=true&pid=10280&priority=2&resolution=-1
     77    * Question, if not happened already, when will we move to EG 11, this should fix a  lot...
     78
     79
     80This will enable us to submit final requests/fixes before encouraging community use (without GeneDB redirecting) but at this stage we will:
     81
     82     * i) Announce to community for feedback
     83     * ii) Add links from GeneDB for people to try new site
     84     * iii) Send out a request for HTP datasets from the community in defined formats (current assembly only at first, this covers most HTP data)
     85
     86
     87*  Curator meeting deadlines for submitting papers (Oct 15) and abstracts (Nov 30).
     88http://pir.georgetown.edu/biocuration2012.html/instructions.html
     89
     90