Difference between revisions of "Working Group:Sequence Features"
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* I have taken the Sequence Feature Papers from RT and assigned the four of us 10 papers each. | * I have taken the Sequence Feature Papers from RT and assigned the four of us 10 papers each. | ||
<pre> | <pre> | ||
− | WBPaper00002925 Daniela | + | WBPaper00002925 Daniela Interaction: 8 |
− | WBPaper00004568 Daniela | + | WBPaper00004568 Daniela Interaction: 2 |
WBPaper00005842 Daniela | WBPaper00005842 Daniela | ||
− | WBPaper00024328 Daniela | + | WBPaper00024328 Daniela Interaction: 4 |
WBPaper00028802 Daniela | WBPaper00028802 Daniela | ||
WBPaper00028915 Daniela | WBPaper00028915 Daniela | ||
WBPaper00029140 Daniela | WBPaper00029140 Daniela | ||
− | WBPaper00029255 Daniela | + | WBPaper00029255 Daniela Interaction: 55 |
− | WBPaper00030829 Daniela | + | WBPaper00030829 Daniela Interaction: 5 |
− | WBPaper00030933 Daniela | + | WBPaper00030933 Daniela Interaction: 1 |
− | WBPaper00003929 Gary | + | WBPaper00003929 Gary Interaction: 25 |
− | WBPaper00005044 Gary | + | WBPaper00005044 Gary Interaction: 20 |
− | WBPaper00005971 Gary This has already been done by Gary: Feature WBsf718850 | + | WBPaper00005971 Gary Interaction: 16 This has already been done by Gary: Feature WBsf718850 |
− | WBPaper00024440 Gary | + | WBPaper00024440 Gary Interaction: 1 |
WBPaper00028816 Gary | WBPaper00028816 Gary | ||
− | WBPaper00028986 Gary | + | WBPaper00028986 Gary Interaction: 16 |
WBPaper00029181 Gary | WBPaper00029181 Gary | ||
− | WBPaper00029327 | + | WBPaper00029327 GaryInteraction: 33 |
WBPaper00030849 Gary | WBPaper00030849 Gary | ||
− | WBPaper00031355 Gary | + | WBPaper00031355 Gary Interaction: 5 |
− | WBPaper00004181 Mary Ann | + | WBPaper00004181 Mary Ann Interaction: 8 |
WBPaper00005056 Mary Ann | WBPaper00005056 Mary Ann | ||
− | WBPaper00006429 Mary Ann | + | WBPaper00006429 Mary Ann Interaction: 3 |
WBPaper00024505 Mary Ann | WBPaper00024505 Mary Ann | ||
WBPaper00028849 Mary Ann | WBPaper00028849 Mary Ann | ||
− | WBPaper00029058 Mary Ann | + | WBPaper00029058 Mary Ann Interaction: 50 |
WBPaper00029190 Mary Ann | WBPaper00029190 Mary Ann | ||
− | WBPaper00029406 Mary Ann | + | WBPaper00029406 Mary Ann Interaction: 145 |
− | WBPaper00030877 Mary | + | WBPaper00030877 Mary AnnInteraction: 8 |
WBPaper00031471 Mary Ann | WBPaper00031471 Mary Ann | ||
− | WBPaper00004482 Xiaodong | + | WBPaper00004482 Xiaodong Interaction: 2 |
− | WBPaper00005609 Xiaodong This has already been done by Margaret: Feature WBsf019097, WBsf038788, WBsf038789, WBsf038790, WBsf038791, WBsf038793, WBsf038794, WBsf019098, WBsf038792 | + | WBPaper00005609 Xiaodong Interaction: 20 This has already been done by Margaret: Feature WBsf019097, WBsf038788, WBsf038789, WBsf038790, WBsf038791, WBsf038793, WBsf038794, WBsf019098, WBsf038792 |
WBPaper00024189 Xiaodong | WBPaper00024189 Xiaodong | ||
WBPaper00024981 Xiaodong | WBPaper00024981 Xiaodong | ||
− | WBPaper00028910 Xiaodong | + | WBPaper00028910 Xiaodong Interaction: 7 |
WBPaper00029109 Xiaodong | WBPaper00029109 Xiaodong | ||
− | WBPaper00029229 Xiaodong | + | WBPaper00029229 Xiaodong Interaction: 3 |
WBPaper00030809 Xiaodong | WBPaper00030809 Xiaodong | ||
− | WBPaper00030931 Xiaodong | + | WBPaper00030931 Xiaodong Interaction: 18 |
− | WBPaper00031565 Xiaodong | + | WBPaper00031565 Xiaodong Interaction: 1 |
</pre> | </pre> | ||
* I suggest we curate 5 of our papers before the jamboree, taking notes as described above and any other things that arise during your curation. | * I suggest we curate 5 of our papers before the jamboree, taking notes as described above and any other things that arise during your curation. |
Revision as of 09:19, 2 September 2014
Topics
- Display of Sequence Features on the website
- And Transcription factors and Gene_product binds.
- Stream out working flow
- Sample papers curation
- Prepare a paper list from each person
- assign meaningful names to the public_name field, e.g. 'distal enhancer 1' instead of 'DE1'
- gw3 - I disagree with this. We should use the name that is used to describe the region in the paper, rather than making up our own names. I have had to go back and re-annotate regions after Xiaodong found problems with my stuff several months after I had originally done it and I really needed to be able to unambiguously identify which region the paper was talking about by using the Public_name field and matching this up to the name of the region in the paper. Users may well need to do this as well if they are reading the paper and looking at the Features marking up the regions.
Pre-Jamboree prep
- Suggestions for work
- Curate some (5? 10?) papers from our lists and collate data as follows
- How long did each paper take to curate
- How many new objects did you add to WormBase
- Where in the paper was the information (e.g. supplementary data, figure legends, within text)
- Did you need to contact the author for more information
- Did you come across data for other curators
- gw3 - I don't know in detail what data other curators require. It would be useful to know this so I can summarise data for others.
- Curate some (5? 10?) papers from our lists and collate data as follows
The Jamboree 15-17th Sept 2014
- Suggestions for work
- Discuss result from above
- Work through some papers which have already been curated and have different data types (e.g. promoter and gene regulation) to identify best curation practices.
- browsing capabilities through WormMine?
Papers to curate
- I have taken the Sequence Feature Papers from RT and assigned the four of us 10 papers each.
WBPaper00002925 Daniela Interaction: 8 WBPaper00004568 Daniela Interaction: 2 WBPaper00005842 Daniela WBPaper00024328 Daniela Interaction: 4 WBPaper00028802 Daniela WBPaper00028915 Daniela WBPaper00029140 Daniela WBPaper00029255 Daniela Interaction: 55 WBPaper00030829 Daniela Interaction: 5 WBPaper00030933 Daniela Interaction: 1 WBPaper00003929 Gary Interaction: 25 WBPaper00005044 Gary Interaction: 20 WBPaper00005971 Gary Interaction: 16 This has already been done by Gary: Feature WBsf718850 WBPaper00024440 Gary Interaction: 1 WBPaper00028816 Gary WBPaper00028986 Gary Interaction: 16 WBPaper00029181 Gary WBPaper00029327 GaryInteraction: 33 WBPaper00030849 Gary WBPaper00031355 Gary Interaction: 5 WBPaper00004181 Mary Ann Interaction: 8 WBPaper00005056 Mary Ann WBPaper00006429 Mary Ann Interaction: 3 WBPaper00024505 Mary Ann WBPaper00028849 Mary Ann WBPaper00029058 Mary Ann Interaction: 50 WBPaper00029190 Mary Ann WBPaper00029406 Mary Ann Interaction: 145 WBPaper00030877 Mary AnnInteraction: 8 WBPaper00031471 Mary Ann WBPaper00004482 Xiaodong Interaction: 2 WBPaper00005609 Xiaodong Interaction: 20 This has already been done by Margaret: Feature WBsf019097, WBsf038788, WBsf038789, WBsf038790, WBsf038791, WBsf038793, WBsf038794, WBsf019098, WBsf038792 WBPaper00024189 Xiaodong WBPaper00024981 Xiaodong WBPaper00028910 Xiaodong Interaction: 7 WBPaper00029109 Xiaodong WBPaper00029229 Xiaodong Interaction: 3 WBPaper00030809 Xiaodong WBPaper00030931 Xiaodong Interaction: 18 WBPaper00031565 Xiaodong Interaction: 1
- I suggest we curate 5 of our papers before the jamboree, taking notes as described above and any other things that arise during your curation.