User:Karmella Haynes/Notebook/PcTF Genomics

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==Illumina ChIP-seq==
==Illumina ChIP-seq==
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Goals:
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* ChIP DNA prep for Illumina: [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2011/12/13 12/13/11],  [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2011/12/14 12/14/11], [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2011/12/19 12/19/11]
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* Map Pc-TF binding & map H3K27me3 in U2OS
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* Fasta --> BAM files: Mark Teng
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* Peak finding DNASTAR Array Star [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2012/12/01 21/01/12]
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* Enrichment analysis (DNASTAR software)
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** BAM --> peaks/ enrichment histograms workflow [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2012/12/13 12/13/2012]
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** BAM --> wig files for UCSC browser workflow [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/07 01/07/2013]
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Revision as of 20:52, 6 March 2013

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Illumina ChIP-seq

  • ChIP DNA prep for Illumina: 12/13/11, 12/14/11, 12/19/11
  • Fasta --> BAM files: Mark Teng
  • Peak finding DNASTAR Array Star 21/01/12
  • Enrichment analysis (DNASTAR software)
    • BAM --> peaks/ enrichment histograms workflow 12/13/2012
    • BAM --> wig files for UCSC browser workflow 01/07/2013



Cell Type Study

  • Express PcTF (KAH126) in K-562 and SK-N-SH


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