Details
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Type: Task
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Status: Closed (View Workflow)
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Priority: Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:0.5
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Epic Link:
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Sprint:Fall 4 2021 Sep 27 - Oct 8
Description
Situation: Yiping Qi's group has identified a paper with rice protoplast single cell RNA-Seq data here. They would like us to investigate the data and see if we can use it to determine lowly expressed genes in rice sheath tissue from protoplasts.
Task: Read through the paper and identify the data sources containing the sequence files. Also see if they have gene counts tables available.
Attachments
Issue Links
- relates to
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IGBF-2943 Investigate recent literature on compendium databases with RNA-Seq
- Closed
Activity
Nowlan Freese
created issue -
Nowlan Freese
made changes -
Field | Original Value | New Value |
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Epic Link |
|
Nowlan Freese
made changes -
Nowlan Freese
made changes -
Description |
Situation: Yiping Qi's group has identified a paper with rice protoplast single cell RNA-Seq data[here|https://pubmed.ncbi.nlm.nih.gov/34340913/]. They would like us to investigate the data and see if we can use it to determine lowly expressed genes in rice sheath tissue from protoplasts.
Task: Read through the paper and identify the data sources containing the sequence files. Also see if they have gene counts tables available. |
Situation: Yiping Qi's group has identified a paper with rice protoplast single cell RNA-Seq data [here|https://pubmed.ncbi.nlm.nih.gov/34340913/]. They would like us to investigate the data and see if we can use it to determine lowly expressed genes in rice sheath tissue from protoplasts.
Task: Read through the paper and identify the data sources containing the sequence files. Also see if they have gene counts tables available. |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
Ann Loraine
made changes -
Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
Ann Loraine
made changes -
Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
Ann Loraine
made changes -
Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
Ann Loraine
made changes -
Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
Ann Loraine
made changes -
Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
Ann Loraine
made changes -
Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
Ann Loraine
made changes -
Resolution | Done [ 10000 ] | |
Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |
Nowlan Freese
made changes -
Link | This issue relates to IGBF-3020 [ IGBF-3020 ] |
Here is the link to the page with the sequence data: https://ngdc.cncb.ac.cn/gsa/browse/CRA004082
This seems to be the only location of the data, they do not appear to be in the SRA, which would explain why we didn't see them earlier.