User:Karmella Haynes/Notebook/PcTF Genomics/2013/01/06

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'''Line item 1'''<br>
 
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> Samples
 
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{| class="wikitable" border="0" cellspacing="3" <!-- Rxn. table -->
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|-valign="top"
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{| {{table}}
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| <u>Reagent</u> || <u>Volume</u>
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|-
|-
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| reagent 1 || # μL
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| Gene || Chromosome || Expected state || H3K27me3 max. DOC || H3K27me3 mock max. DOC || PcTF max. DOC || PcTF mock max. DOC
|-
|-
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| reagent 2 || #
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| ALAS1 || chr 3 || active || ~160 ||  ||  ||  ||
|-
|-
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| reagent 3 || #
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| TBP || chr 6 || active || ~160 ||
|-
|-
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| reagent 4 || #
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| ACTB || chr 7 || active || ~180
|-
|-
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| dH<sub>2</sub>O || #
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| GUSB || chr 7 || active || ~160
|-
|-
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| &nbsp; || # μL
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| PPIA || chr 7 || active || ~90
 +
|-
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| GAPDH || chr 12 || active || ~90
 +
|-
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| B2M || chr 15 || active || 0
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|-
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| G6PD || chr X || active || ~130
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|-
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| HPRT1 || chr X (24) || active || ~150
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|-
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| PGK1 ||  chr X (24) || active || ~240
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|-
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| CDKN2A || chr9 || silent (H3K27me3+) || ~90
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|-
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| MMP12 || chr11 || silent (H3K27me3+) || ~18
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|-
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| MYT1 || chr20 || silent (H3K27me3+) || '''~270'''
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|-
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| OLIG1 || chr21 || silent (H3K27me3+) || 0
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|-
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| OLIG2 || chr21 || silent (H3K27me3+) || ~130
|}
|}
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--> Reaction conditions
 
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Revision as of 20:09, 6 January 2013

Pc-TF Genomics Main project page
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01/06/13

  • ChIP seq: run SeqMan NGen alignment on H3K27me3 mock (lane 7)
  • Expand table from 1/05/13 to include PcTF, PcTF mock, H3K27me3, H3K27me3 mock


Gene Chromosome Expected state H3K27me3 max. DOC H3K27me3 mock max. DOC PcTF max. DOC PcTF mock max. DOC
ALAS1 chr 3 active ~160
TBP chr 6 active ~160
ACTB chr 7 active ~180
GUSB chr 7 active ~160
PPIA chr 7 active ~90
GAPDH chr 12 active ~90
B2M chr 15 active 0
G6PD chr X active ~130
HPRT1 chr X (24) active ~150
PGK1 chr X (24) active ~240
CDKN2A chr9 silent (H3K27me3+) ~90
MMP12 chr11 silent (H3K27me3+) ~18
MYT1 chr20 silent (H3K27me3+) ~270
OLIG1 chr21 silent (H3K27me3+) 0
OLIG2 chr21 silent (H3K27me3+) ~130



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