Daniel:Notebook/RNAFISH/2014-7-7: Difference between revisions

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>Djacobse
(Created page with "=Probe Design= Back to Calendar Designing probes for Matt and Hosuk's rolony project. The three genes they are testing are ACTB, RAB7A, and MALA...")
 
>Djacobse
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#Obtain transcript sequence from [http://genome.ucsc.edu/|UCSC Genome Browser]
#Obtain transcript sequence from [http://genome.ucsc.edu/|UCSC Genome Browser]
##Use genome browser to find genes, and tables to download transcript (mRNA only)
##Use genome browser to find genes, and tables to download transcript (mRNA only)
#
#Use gene sequence as input for [https://www.biosearchtech.com/stellarisdesigner/|Stellaris probe designer]
##Designer created by Arjun Raj, utilized by Long Cai for paper
##Creates 20mer probes

Revision as of 21:40, 7 July 2014

Probe Design

Back to Calendar

Designing probes for Matt and Hosuk's rolony project. The three genes they are testing are ACTB, RAB7A, and MALAT1. I will design probe sets for these three genes.

Workflow

  1. Obtain transcript sequence from Genome Browser
    1. Use genome browser to find genes, and tables to download transcript (mRNA only)
  2. Use gene sequence as input for probe designer
    1. Designer created by Arjun Raj, utilized by Long Cai for paper
    2. Creates 20mer probes