Tumor Suppressor Role of INPP4B in Chemoresistant Retinoblastoma
Table 3
Responsive gene selection (RGS) after INPP4B overexpression in etoposide resistant RB355 cells. Genes with positive fold change (FC) value represent upregulated genes after INPP4B overexpression, while negative FC values indicate downregulated genes.
Gene symbols
Description of upregulated DEGs
FC
-value
INPP4B
Tumor suppressor; involved in phosphatidylinositol signaling
6.26
0.000
CNTNAP5
Contactin associated protein family member 5
4.83
0.003
VSIG8
V-set and immunoglobulin domain containing 8
4.32
0.027
CD44
Involved in cell-cell interactions, cell adhesion and migration; receptor for hyaluronic acid; possibly related to tumor metastasis
4.29
0.018
PRAMEF27
Predicted to be involved in negative regulation of apoptotic process; negative regulation of transcription and positive regulation of proliferation
4.23
0.029
CABP1
Regulates calcium-dependent activity of inositol 1,4,5-triphosphate receptors; predominantly expressed in retina and brain
4.23
0.007
GLIPR1L2
Members of this family have roles in a variety of processes, including cancer and immune defense
4.21
0.035
GPSM3
Predicted to enable GTPase regulator activity and to be involved in positive regulation of inflammatory response
4.16
0.026
MYH8
Encodes a member of the class II or conventional myosin heavy chains; functions in skeletal muscle contraction
3.97
0.050
TRIM49
Contains a RING zinc finger, a motif known to be involved in protein-protein interactions
3.94
0.002
TRIM49 C
Predicted to enable ubiquitin protein ligase activity
3.62
0.008
TNFSF4
Encodes a cytokine of the tumor necrosis factor (TNF) ligand family
3.57
0.033
GIF
Member of the cobalamin transport protein family, glycoprotein secreted by parietal cells of the gastric mucosa
3.56
0.034
ACADL
Belongs to the acyl-CoA dehydrogenase family
3.41
0.003
FGD5
Predicted to enable guanyl-nucleotide exchange factor activity and small GTPase binding activity
3.40
0.048
IFIT2
Enables RNA binding activity; involved in positive regulation of apoptotic process
3.12
0.030
WFIKKN2
Contains a WAP, follistatin, and immunoglobulin domain, two tandem kunitz domains, and a NTR domain
2.92
0.047
FSD2
Encodes a protein that belongs to the FN3/SPRY family
2.79
0.025
CYGB
may be involved in protection during oxidative stress
2.68
0.034
SLITRK1
Thought to be involved in neurite outgrowth
2.40
0.019
ETV4
Involved in positive regulation of keratinocyte differentiation and transcription by RNA polymerase II
1.76
0.000
RNF227
Predicted to enable metal ion binding activity
1.71
0.011
MYOM1
Myomesin 1 and other myofibrillar proteins contain structural modules with strong homology to fibronectin type III (motif I) or immunoglobulin C2 (motif II) domains
1.70
0.032
SLC16A8
Member of a family of proton-coupled monocarboxylate transporters mediating lactate transport across cell membranes
1.58
0.017
COL7A1
Functions as an anchoring fibril between external epithelia and underlying stroma
1.50
0.017
Gene symbols
Description of downregulated DEGs
FC
-value
PTAFR
G-protein-coupled receptor for platelet-activating factor (PAF); stimulates signal transduction pathways including the phosphatidylinositol-calcium second messenger system
−4.39
0.003
DSCAM
Involved in human central and peripheral nervous system development
−4.23
0.023
LRRN4
Predicted to act upstream of or within visual learning
−3.94
0.050
PLK5
Involved in defense response to tumor cells; positive regulation of neuron projection development
−3.90
0.050
ATP8B4
Involved in phospholipid transport in the cell membrane
−2.62
0.036
NNAT
Possibly involved in the regulation of ion channels during brain development; role in forming and maintaining nervous system structure
