Rui:SingelCell RNAseq: Difference between revisions
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==SCAP project== | ==SCAP project== | ||
* Main link [http://genome-tech.ucsd.edu/SCAP/index.php/Main_Page] | * Main link [http://genome-tech.ucsd.edu/SCAP/index.php/Main_Page] pwd:24 | ||
* Sample's link: Data center - under SCAP website, SingleCell, SingleCell!@34 | * Sample's link: Data center - under SCAP website, SingleCell, SingleCell!@34 | ||
* Libraries [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:RNAseq-libraries] | * Libraries [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:RNAseq-libraries] |
Revision as of 21:41, 31 October 2013
SCAP project
- Main link [1] pwd:24
- Sample's link: Data center - under SCAP website, SingleCell, SingleCell!@34
- Libraries [2]
- Data: genome-miner.ucsd.edu:/media/Ext4T/KZ_Ext4T/RNAseq/
- RNAseq pipeline http://genome-tech.ucsd.edu/LabNotes/index.php/RNAseq_pipeline [3]
Background
- Goal: the smallest functional unit; the exact quantity; full-length RNAs; sense vs anti-sense; all classes; at single-base resolution
- Review papers:
- Key papers:
- Single cell and cell lysis
- 1st cDNA synthesis and free primer removal
- 2nd cDNA synthesis: A-tailing vs random
- Amplification: PCR or IVT
- QC and clone
Protocols
- PCR based protocol
- IVT based protocol
- HRCA based protocol
- Nextera based protocol
- toto-TSO_RNAseq protocol
- toto-IVT_RNAseq protocol
QuickNotes
2013
<calendar> name=Rui:LabNotes/SingleCell format=%name/%year-%month-%day date=2013/10/1 view=oneyear </calendar>
2012
<calendar> name=Rui:LabNotes/SingleCell format=%name/%year-%month-%day date=2012/10/1 view=oneyear </calendar>
2011
<calendar> name=Rui:LabNotes/SingleCell format=%name/%year-%month-%day date=2011/10/1 view=oneyear </calendar>