gene search is available on top page 1. navigation 2. query...
TRANSCRIPT
![Page 1: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/1.jpg)
Top page①
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Gene Search is available on
Top page
1. Navigation
2. Query box (keywords)
3. Search type
4. Search organisms
5. Submit button
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![Page 2: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/2.jpg)
1. Add keywords
For example
leaf, SRR037733,
SRP002106, light(Click example button)
2. Checked radio button of
“Experimental condition”
3. Click submit button
Example of Experimental condition search
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![Page 3: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/3.jpg)
Experimental condition search result
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1. Download search result
2. Previous page of search
result
3. Shown result par page
4. The current page / all pages
5. Query box for filtering result
6. Next page of search result
7. Gene search : query is “transcript id”.
8. Link to Plant Omics Data Center (PODC)
9. Browse all candidate gene list
![Page 4: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/4.jpg)
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1.Add keywordsFor example
AT1G01073, myb, DNA
binding
2.Checked radio button of
“Gene”
3.Click submit button ③
Example of gene search
![Page 5: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/5.jpg)
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1. Download Candidate gene list
2. Link to Experimental condition detail page
3. Link to PODC
4. Link to Orthologous detail page
Link to DDBJ
Link to InterPro
Link to KEGG
Link to AmiGo
Link to GRAMENE
Link to Plant Ontology
Gene search result
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![Page 6: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/6.jpg)
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1. The list of specific-expressed conditions (runs)
2. Summary of conditions
3. List of runs that belong to the study that contains the
run that are specific-expressed
Experimental condition detail page
![Page 7: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/7.jpg)
Experimental condition detail page3. Main : List of runs that belong to the study that contains the run that are
highly expressed
★specific-expressed condition
![Page 8: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/8.jpg)
2. Summary
same condition
same condition
deduplication
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Conditions contained in “Summary” is deduplication of “Main”.① 2 / 2 (Number of highly expressed conditions / Number of same condition)
Experimental condition detail page
![Page 9: Gene Search is available on Top page 1. Navigation 2. Query ...plantomics.mind.meiji.ac.jp/CATchUP/img/CATchUP_manual.pdf1. Navigation 2. Query box (keywords) 3. Search type 4. Search](https://reader036.vdocument.in/reader036/viewer/2022070111/604d36a48d0f9c0dad3bfb11/html5/thumbnails/9.jpg)
Orthologous detail page
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1.List of candidate transcript belonging to orthologous group
2.Summary table (previously described)
3.Link to Experimental condition detail page
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