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:  
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* Map Pc-TF binding & map H3K27me3 in U2OS
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** Experimental samples - [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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** Input DNA - [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/25 01/25/13]
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* Fasta --> BAM files: Mark Teng from the Dinu lab (TGEN)
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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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<br>
<br>
==Cell Type Study==
==Cell Type Study==
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* Express PcTF (KAH126) in K-562 and SK-N-SH
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* Carly Hom - Express PcTF (KAH126) in K-562 and SK-N-SH

Revision as of 13:27, 19 April 2013

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Illumina ChIP-seq

  • ChIP DNA prep for Illumina:
  • Fasta --> BAM files: Mark Teng from the Dinu lab (TGEN)
  • 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

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


Recent changes

11 September 2014

+ N    17:18 User:Karmella Haynes/Notebook/PcTF Genomics/2014/09/11‎ (2 changes) . . (+1,588) . . (Page history) [Karmella Haynes‎ (2×)]

10 September 2014

+ N    16:00 User:Karmella Haynes/Notebook/PcTF Genomics/2014/09/10‎ (5 changes) . . (+2,450) . . (Page history) [Karmella Haynes‎ (5×)]
       15:28 User:Karmella Haynes/Notebook/PcTF Genomics/2014/09/09 (diff; hist) . .  (+185) . . Karmella Haynes (Talk | contribs) (09/09/14: )
       15:26 User:Karmella Haynes/Notebook/PcTF Genomics (diff; hist) . .  (+50) . . Karmella Haynes (Talk | contribs) (Cell Type Study: )

9 September 2014

       20:09 User:Karmella Haynes/Notebook/PcTF Genomics/2014/09/09 (diff; hist) . .  (+390) . . Karmella Haynes (Talk | contribs) (09/09/14: )


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