Difference between revisions of "WBConfCall 2013.02.07-Agenda and Minutes"
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==Models== | ==Models== | ||
− | 8 models proposals for WS237 inclusion. | + | *8 models proposals for WS237 inclusion. |
− | + | **2 provisional | |
− | * 2 provisional | + | ***History_gene connections (multiple classes) - Chris |
− | + | ****Chris will discuss with relevant curators and confirm with Paul | |
− | + | ****Needs significant testing, Chris will liaise with Paul. | |
− | + | ****probably bump to WS238 as there hasn't been any further discussion since call. | |
− | + | ***Feature_data - Gary | |
− | + | ****Mapping to a condition rather than via a method. | |
− | + | ****Needs testing as may have implications for acedb. | |
− | + | ****probably bump to WS238 as there hasn't been any further discussion since call. | |
− | + | **6 scheduled for inclusion. | |
− | * 6 scheduled for inclusion. | + | ***Accession class retirement continues |
− | + | ***homol_data - Kevin | |
− | + | ****Oligo_set mapping as we do for other classes. | |
− | + | ***Transgene - Karen | |
− | + | ****Construction_summary Text | |
− | + | ***Transcript - Paul | |
− | + | ****Add biotype lincRNA. | |
− | + | ***Oligo_set & Microarray_result - wen/kev | |
− | + | ****Addition of ?Species | |
− | + | ***?YH & ?Gene_regulation retirement - Chris | |
− | + | ****Complicated change as needs interaction adding in lots of classes. | |
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− | |||
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==David Miller cell specific expression data-tiling arrays== | ==David Miller cell specific expression data-tiling arrays== | ||
Line 38: | Line 30: | ||
Have the tiling array data been curated already? if so we can point him to SPELL. | Have the tiling array data been curated already? if so we can point him to SPELL. | ||
+ | |||
+ | |||
+ | From discussions: | ||
+ | |||
+ | Daniela will contact David and point him to the expression cluster page. Data will be in in 237. | ||
==Request from Caltech to expand release notes== | ==Request from Caltech to expand release notes== | ||
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See | See | ||
http://wiki.wormbase.org/index.php/Release_note_requests | http://wiki.wormbase.org/index.php/Release_note_requests | ||
+ | |||
+ | From discussions: | ||
+ | *Release notes should be aimed at user community, tag names and some numbers may not be interesting for them. | ||
+ | *We could generate a separate list for internal use, with all the statistics that curators want. | ||
+ | |||
+ | ==How to handle predicted interactions== | ||
+ | *Take out all the predicted interactions from the gene page, instead include the link to the external databases that provide these--Gene Orienteer, WormNet etc. | ||
+ | *Data will be kept in acedb for purposes of Cytoscape? | ||
+ | |||
+ | ==WormMine== | ||
+ | *There will be priority data sets that will be loaded first | ||
+ | *SGD has ready templates | ||
+ | *JD will give a demo of WormMine, Thursday 14th, at 8.30 PST |
Latest revision as of 11:59, 15 February 2013
Contents
Models
- 8 models proposals for WS237 inclusion.
- 2 provisional
- History_gene connections (multiple classes) - Chris
- Chris will discuss with relevant curators and confirm with Paul
- Needs significant testing, Chris will liaise with Paul.
- probably bump to WS238 as there hasn't been any further discussion since call.
- Feature_data - Gary
- Mapping to a condition rather than via a method.
- Needs testing as may have implications for acedb.
- probably bump to WS238 as there hasn't been any further discussion since call.
- History_gene connections (multiple classes) - Chris
- 6 scheduled for inclusion.
- Accession class retirement continues
- homol_data - Kevin
- Oligo_set mapping as we do for other classes.
- Transgene - Karen
- Construction_summary Text
- Transcript - Paul
- Add biotype lincRNA.
- Oligo_set & Microarray_result - wen/kev
- Addition of ?Species
- ?YH & ?Gene_regulation retirement - Chris
- Complicated change as needs interaction adding in lots of classes.
- 2 provisional
David Miller cell specific expression data-tiling arrays
From Daniela: WS235 contains the links to WormViz in the anatomy page under the External links widget. David writes: "Although the link is certainly useful in this location its really buried and will not be noticed by most users. why not include a link to wormviz on the expression page for each gene?"
Have the tiling array data been curated already? if so we can point him to SPELL.
From discussions:
Daniela will contact David and point him to the expression cluster page. Data will be in in 237.
Request from Caltech to expand release notes
Caltech has been making a list of datatypes/objects that we would like numbers for, from each build, to be included in release notes. Is this something that Hinxton could do?
See http://wiki.wormbase.org/index.php/Release_note_requests
From discussions:
- Release notes should be aimed at user community, tag names and some numbers may not be interesting for them.
- We could generate a separate list for internal use, with all the statistics that curators want.
How to handle predicted interactions
- Take out all the predicted interactions from the gene page, instead include the link to the external databases that provide these--Gene Orienteer, WormNet etc.
- Data will be kept in acedb for purposes of Cytoscape?
WormMine
- There will be priority data sets that will be loaded first
- SGD has ready templates
- JD will give a demo of WormMine, Thursday 14th, at 8.30 PST