Week 8

Question 1

What will be the read counts of gene C in replicate 2 after TPM conversion?

Answer 1

8810

Question 2

Gene A counts in four different samples are 1000, 270, 156, 190, respectively. What will
be the pseudo reference sample count according to the DESeq2 normalization process?
(Pseudo reference sample is generated by taking geometric mean)

Answer 2

299

Question 3

Which of the following model is most suitable to handle over-dispersed data?
A. Poisson
B. Binomial
C. Negative Binomial
D. Exponential

Answer 3

C

Question 4

Which of the below normalization method calculates geometric mean across sample?
A. TPM
B. Median of ratio
C. Quantile normalization
D. Upper quartile normalization.

Answer 4

B

Question 5

Which of the below tools are being utilized for differential gene expression analysis?
A. DESeq2
B. edgeR
C. baySeq
D. clusterProfiler

Answer 5

A, B and C

Question 6

Which of the below tools are being utilized for differential gene expression analysis?
A. DESeq2
B. edgeR
C. baySeq
D. clusterProfiler

Answer 6

A, B and C