Spombe

Friday, October 25, 2013

Comparison of 3 Samples with total mRNA (updated, with unique id)

Title	Plot	Plot (scaled by gene)	Excel file
Heatmap of 90 significant genes in 3 samples	File:Heatmap-89sig-genes-3sample.pdf	File:Heatmap-89sig-genes-3sample-scaled.pdf	File:Sig genes-in-3samples.xlsx

Wednesday, October 23, 2013

Comparison of 3 Samples with total mRNA

Title	Plot	Plot (scaled by gene)	Excel file
Heatmap of 89 significant genes in 3 samples	File:Heatmap-89sig-genes-3sample.pdf	File:Heatmap-89sig-genes-3sample-scaled.pdf	File:Sig genes-in-3samples.xlsx

Thursday, October 17, 2013

mRNA export affected by KD or OE of nup211

Title	Plot
Export (C/N) of 40 genes affected by KD of nup211 (heatmap)	File:Heatmap-40genes-export-KD.pdf
Export (C/N) of 39 genes affected by OE of nup211 (heatmap)	File:Heatmap-39genes-export-OE.pdf

Wednesday, October 16, 2013

Comparison of 4 Samples with total mRNA

Title	Plot	Plot (scaled by gene)
Heatmap of 76 significant genes	File:Heatmap-76sig-genes-4sample.pdf	File:Heatmap-76sig-genes-4sample-scaled.pdf

Friday, October 11, 2013

Comparison of all 10 Samples

Title	Plot	Plot (scaled by gene)
Barplot Nup 211	File:Nup211.pdf
Heatmap of 13 genes of interest	File:Heatmap-13interested-genes-10sample.pdf
Heatmap of 80 significant genes	File:Heatmap-80sig-genes.pdf	File:Heatmap-80sig-genes-scaled-by-gene.pdf
Heatmap of 39 genes of interest	File:Heatmap-39interested-genes.pdf	File:Heatmap-39interested-genes-scaled-by-gene.pdf

Tuesday, October 8, 2013

Comparison between Samples 1,4,7, and 10

Title	Plots
Volcano Plots
Heatmap of 13 genes of interest	File:Heatmap-13interested-genes.pdf
Heatmap of 76 significant genes	File:Heatmap-76sig-genes.pdf

References

• Trapnell et al (2012). Nature Protocol. 7(2): 562.
  File:Texudo-pipeline-nprot.2012.016.pdf

  PDF
• Goff et al (2012). CummeRbund Manual
  File:CummeRbund-manual.pdf