User:Karmella Haynes/Notebook/PcTF Genomics/2012/12/26

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(12/26/12)
(12/26/12)
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* Completed PcTF (lane 1) and PcTF mock (lane 2) BAM --> assembly workflow
* Completed PcTF (lane 1) and PcTF mock (lane 2) BAM --> assembly workflow
* Open in SeqMan pro to see raw values for four genes from 2011 paper.
* Open in SeqMan pro to see raw values for four genes from 2011 paper.
 +
Workflow
Workflow
* Go to the [http://genome.ucsc.edu/cgi-bin/hgGateway UCSC genome browser]. Select Feb. 2009 GRCh37/hg19.
* Go to the [http://genome.ucsc.edu/cgi-bin/hgGateway UCSC genome browser]. Select Feb. 2009 GRCh37/hg19.
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* Search for the gene by name. Click [Submit]. Record the chromosome number and coordinates.
+
* Enter the gene name. Click [Submit].  
 +
* Record the chromosome number and coordinates.
 +
 
1. Name: CDKN2A, Coordinates: chr9: 21,967, 751..21,975,132
1. Name: CDKN2A, Coordinates: chr9: 21,967, 751..21,975,132

Revision as of 18:47, 26 December 2012

Pc-TF Genomics Main project page
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12/26/12

  • ChIP-seq enrichment: PcTF vs. PcTF mock for select genes

ChIP: PcTF vs. PcTF mock

  • Completed PcTF (lane 1) and PcTF mock (lane 2) BAM --> assembly workflow
  • Open in SeqMan pro to see raw values for four genes from 2011 paper.


Workflow

  • Go to the UCSC genome browser. Select Feb. 2009 GRCh37/hg19.
  • Enter the gene name. Click [Submit].
  • Record the chromosome number and coordinates.


1. Name: CDKN2A, Coordinates: chr9: 21,967, 751..21,975,132




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