Table 1 KEGG pathway analysis of the deregulated genes identified by microarray and RNA-sequencing after downregulation of MEG3 and EZH2 by siRNA in BT-549 cells using GeneSCF.

From: MEG3 long noncoding RNA regulates the TGF-β pathway genes through formation of RNA–DNA triplex structures

KEGG-ID

KEGG pathways

MEG3 ( P value)

EZH2 ( P value)

  

Microarray

RNA-seq

Microarray

RNA-seq

hsa05200

PI3K-Akt signalling pathway

0.0000000307

0.00036

0.0001

0.00000376

hsa04390

Proteoglycans in cancer

0.000000472

0.00494

0.00000787

0.0021

hsa05166

Pathways in cancer

0.00000099

0.000000697

0.00000808

0.002

hsa04350

TGF-beta signalling pathway

0.0000059

0.0000893

0.00000062

0.0002

hsa05205

HTLV-I infection

0.00000865

0.00000239

0.0002

0.0432

hsa04151

Focal adhesion

0.0000188

0.00076

0.0005

0.0000239

hsa04910

Insulin signalling pathway

0.0000246

0.0175

0.0087

0.0274

hsa04510

Hippo signalling pathway

0.0000867

0.000002029

0.0001

0.0022

hsa01100

Colorectal cancer

0.0001

0.0017

0.000029

0.0009

hsa05414

Regulation of actin cytoskeleton

0.0003

0.0001

0.0012

0.0000114

hsa04010

Endocytosis

0.0005

0.0000187

0.0002

0.0002

hsa00532

Pancreatic cancer

0.0008

0.01

0.0002

0.0000439

hsa04668

Hypertrophic cardiomyopathy

0.0013

0.00000569

0.0053

0.0238

hsa05203

Chagas disease

0.0013

0.0028

0.000022

0.0054

hsa04520

Adherens junction

0.0016

0.0002

0.000079

0.0005

hsa05142

Viral carcinogenesis

0.0017

0.0144

0.0082

0.0177

hsa05410

TNF signalling pathway

0.0019

0.00107

0.0052

0.0001

hsa05212

Glycosaminoglycan biosynthesis

0.0027

0.002

0.0311

0.0136

hsa04144

MAPK signalling pathway

0.0062

0.0004

0.014

0.0001

hsa04810

Dilated cardiomyopathy

0.02

0.0000489

0.0013

0.0289

hsa05210

Metabolic pathways

0.04

0.0269

0.0009

0.0216

  1. siRNA, small interfering RNA; TGF, transforming growth factor.
  2. *P value represents Fisher’s exact test and obtained using GeneSCF (see Methods section).