squamous cell carcinoma: looking for tale-tell signs
Post on 09-May-2015
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Squamous Cell Lung Carcinoma Looking for tell-tale signs Nacho
Caballero
P2-N
P1
P4 P3
P2
P2
Normal
Intermediate Tumor
P2-N
Human height follows a normal distribution
Distribution of the number of reads that align to each gene
# reads
RNA Seq data can be modeled using a
negative binomial distribution
# reads
- 0 + Log Fold Change
Significance High
Low
Genes with significant count differences between
normal and intermediate samples
Normal Intermediate Tumor
Patient 1 Patient 2 Patient 3 Patient 4
100K counts 10K counts 1K counts 100 counts 10 counts 1 counts
CDON counts are significantly smaller in intermediate than in normal
Patient 1 Patient 2 Patient 3 Patient 4
71 1267
Intermediate vs
Normal
Tumor vs
Normal
Number of significant genes
226 1041 217
3 patients 4 patients
43 28 15
3 patients 4 patients
Number of significant genes
Intermediate vs
Normal
Tumor vs
Normal
Interpreting the tell-tale signs
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