I have miRNA seq experiment with two conditions; (i) Asthma patients (treatments) and (ii) normal (controls). There are 9 human patients and 6 normal human that I am using as replicates for differential expression analysis by DESeq. I found following miRNAs count.
Treatments [/B]
Replicates : miRNA expressed
T_R_1 : 581
T_R_2 : 617
T_R_3 : 618
T_R_4 : 591
T_R_5 : 573
T_R_6 : 585
T_R_7 : 602
T_R_8 : 568
T_R_9 : 633
Controls[/B]
Replicates : miRNA expressed
C_R_1 : 587
C_R_2 : 560
C_R_3 : 423
C_R_4 : 572
C_R_5 : 550
C_R_6 : 535
After performing differential expression by DESeq only 42 miRNAs are significant at pval <=0.05 and fold change ±1.5. To understand the correlation between replicates I created correlation heatmap (attached) and found strange correlation. I would like to know that with this correlation the 42 miRNAs that are differentially expressed is a good result or a bad result? Waiting for a positive response, thanks in advance.
Treatments [/B]
Replicates : miRNA expressed
T_R_1 : 581
T_R_2 : 617
T_R_3 : 618
T_R_4 : 591
T_R_5 : 573
T_R_6 : 585
T_R_7 : 602
T_R_8 : 568
T_R_9 : 633
Controls[/B]
Replicates : miRNA expressed
C_R_1 : 587
C_R_2 : 560
C_R_3 : 423
C_R_4 : 572
C_R_5 : 550
C_R_6 : 535
After performing differential expression by DESeq only 42 miRNAs are significant at pval <=0.05 and fold change ±1.5. To understand the correlation between replicates I created correlation heatmap (attached) and found strange correlation. I would like to know that with this correlation the 42 miRNAs that are differentially expressed is a good result or a bad result? Waiting for a positive response, thanks in advance.
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