What are all the different methods available for identifying the DEG?

Question

[mathavanbioinfo]

Dear All,

I am working on Micro-array data analysis with this GEO acc no. GSE31747, In this paper PMID 22024983 (https://www.ncbi.nlm.nih.gov/pubmed/22028943) they have used ANOVA method to identify the significant genes,Now i am trying to compare their results with Limma package but i am not getting any single significant genes(P-Value<0.05 ). So can any one tell me if Limma not give any significant genes what else other methods i can go.

By

Mathavan M

Research Scholar Centre for Bioinformatics

Pondicherry University

[e-mail]

[GouthamAtla]

There can be multiple things that could go wrong. Before comparing with other methods, first did you replicate their results with ANOVA ?