Table 1.

Overview of analysis methods for molecular biomarkers.

Methods	Description	Applications	Reference
DESeq2	A method using shrinkage estimation for differential expression analysis of count data.	Quantitative analysis of comparative RNA-seq data using shrinkage estimators for dispersion and fold change.	[13]
edgeR	Examining differential expression of replicated count data.	Can be used in experiments that generate counts.	[14]
SVM	A powerful method to build a classifier.	Cancer genomic classification or subtyping.	[15, 16]
PLS-DA	A discrimination method based on PLS regression.	Predictive and descriptive modeling as well as for discriminative variable selection.	[17], [18], [19]
LASSO	A shrinkage and selection method for linear regression.	Estimating parameters and selecting variables.	[20]
RFE	Method of gene selection utilizing SVM methods based on recursive feature elimination.	Selecting features by recursively considering smaller sets of features.	[21]