Table 1 Statistical analysis.

From: PDL1 targeting by miR-138-5p amplifies anti-tumor immunity and Jurkat cells survival in non-small cell lung cancer

Step

Associated data

Method

Function

Data preprocessing

Just required on GSE43580 (mRNA) and GSE36681 (miRNA) dataset

Log-2 normalization

To equalize the scale of datasets before merging datasets

 

All datasets

Batch normalization

To remove batch differences to merge datasets

  

cohen.d function in effsize package in R language

Effect size calculation

  

pwr.t.test function in pwr package in R language

Sample size calculation

Finding differentially expressed miRNAs /hsa-miR-138 and CD274 expression levels in GEO samples

Final dataset for mRNA and miRNA datasets

Fitting linear model

To calculate Log FC

  

False Discovery Rate (FDR) (Benjamin and Hochberg's method)

To calculate adjusted P value

  

Moderated t-statistic

To calculate P value

Network construction (WGCNA)

Final mRNA dataset

Biweight

Midcorrelation

(Bicor correlation)

To measure the similarity between genes to find the association among them for constructing WGCNA

Module-trait association (WGCNA)

Module detection

Pearson correlation

To measures the correlation coefficient between quantitative data using a linear model

  

t-student

Cor P value student

To see whether groups are different from each other and provide P values to observe the significance

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