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Table 3 Table 3a. Genes with Gene symbol expression levels specifically associated with the cytotoxicity of perifosine (FDRBH < 0.10)

From: Genome-wide identification of genetic determinants for the cytotoxicity of perifosine

Gene symbol

Gene title

r a

p

Response

 

GL-U95

     

REG4

Regenerating islet-derived family, member 4

-0.58

I.3E-06

Sensitivity

 

SLCO4A1

Solute carrier organic anion transporter family, member 4A1

-0.52

2.3E-05

Sensitivity

 

RPL18A

Ribosomal protein L18a

-0.50

4.7E-05

Sensitivity

 

OAZ2

Ornithine decarboxylase antizyme 2

0.53

I.6E-05

Resistance

 

DZIP3

Zinc finger DAZ-interacting protein 3

0.58

I.5E-06

Resistance

 

NP-U95

     

STK39

Serine threonine kinase 39 (STE20/ SPSI homologue, yeast)

- 0.48

I.2E-04

Sensitivity

 

FAM32A

Family with sequence similarity 32, member A

- 0.46

2.5E-04

Sensitivity

 

MAPKAPK3

Mitogen-activated protein kinase-activated protein kinase 3

- 0.45

3.0E-04

Sensitivity

 

RAB8A

RAB8A, member Ras oncogene family

- 0.44

4.7E-04

Sensitivity

 

STK17B

Serine/threonine kinase I7b (apoptosis-inducing)

- 0.44

5.8E-04

Sensitivity

 

TCF3

Transcription factor 3 (E2A immunoglobulin enhancer binding factors EI2/E47)

- 0.44

5.8E-04

Sensitivity

 

PARP4

Poly (ADP-ribose) polymerase family, member 4

- 0.43

6.IE-04

Sensitivity

 

PSMA2

Proteasome (prosome, macropain) subunit, alpha type, 2

- 0.43

6.3E-04

Sensitivity

 

DGKE

Diacylglycerol kinase, epsilon 64 kDa

- 0.43

6.9E-04

Sensitivity

 

PVT1

Pvtl oncogene homologue, MYC activator (mouse)

0.42

I.0E-03

Resistance

 

ELOVL2

Elongation of very long chain fatty acids (FENI/Elo2, SUR4/Elo3, yeast)-like 2

0.42

9.5E-04

Resistance

 

SMARCA3

SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily a, member 3

0.42

9.3E-04

Resistance

 

USP6

TLI32 protein

0.43

7.IE-04

Resistance

 

IGF1R

Insulin-like growth factor I receptor

0.44

5.3E-04

Resistance

 

NFATC4

Nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4

0.44

5.4E-04

Resistance

 

POU4F1

POU domain, class 4, transcription factor I

0.44

5.IE-04

Resistance

 

PDLIM3

PDZ and LIM domain 3

0.44

5.0E-04

Resistance

 

CBS

Cystathionine beta-synthase

0.44

4.4E-04

Resistance

 

ARMCX2

Armadillo repeat containing, X-linked 2

0.45

3.9E-04

Resistance

 

OPHN1

Oligophrenin I

0.46

2.5E-04

Resistance

 

ZNF609

Zinc finger protein 609

0.46

2.3E-04

Resistance

 

ATN1

Atrophin I

0.47

I.5E-04

Resistance

 

DZIP3

Zinc finger DAZ-interacting protein 3

0.48

I.3E-04

Resistance

 

PPBPL2

Pro-platelet basic protein-like 2

0.49

9.3E-05

Resistance

 

MPDZ

Multiple PDZ domain protein

0.53

I.3E-05

Resistance

 

SKIV2L

Superkiller viralicidic activity 2-like (Saccharomyces cerevisiae)

0.56

4.6E-06

Resistance

 

GABRG3

Gamma-aminobutyric acid (GABA) A receptor, gamma 3

0.60

4.9E-07

Resistance

 

NS-cDNA

     

ATF2

Activating transcription factor 2

- 0.56

4.8E-06

Sensitivity

 

TRA2A

Transformer-2 alpha

- 0.44

8.3E-04

Sensitivity

 

ETS2

V-ets erythroblastosis virus E26 oncogene homologue 2 (avian)

- 0.44

5.3E-04

Sensitivity

 

UBE2D3

Ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homologue, yeast)

- 0.42

8.5E-04

Sensitivity

 

ANP32A

Acidic (leucine-rich) nuclear phosphoprotein 32 family, member A

0.49

I.6E-04

Resistance

 

Table 3b. SNPs associated with the cytotoxicity of perifosine (FDR BH < 0.10)

dbSNP a

Gene locus

Location

r

p

Model

rs4236669

CACNA2DI

Intron

0.64

2.8E-07

Recessive

rsl468400

CACNA2DI

Intron

0.62

8.8E-07

Recessive

rs1345938

EXOC4

Intron

0.58

2.6E-06

Recessive

  1. Table 3a. aPearson correlation coefficients were calculated by linear regression in which cytotoxicity (-log10[GI50]) was dependent on gene expression. A positive r-value indicates that a gene is correlated with resistance, while a negative r-value indicates that a gene is correlated with sensitivity.
  2. Table 3b. adbSNP Build 126 (May, 2006).