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Table 1 Top 10 genes downregulated or upregulated in U373MG cells following exposure to anti-cancer chemical compounds

From: Molecular network profiling of U373MG human glioblastoma cells following induction of apoptosis by novel marine-derived anti-cancer 1,2,3,4-tetrahydroisoquinoline alkaloids

ET-770 (the Compound 1a)

ET-770 Derivative (the Compound 3)

RM (the Compound 2a)

Downregulated Genes (n = 426)

Downregulated Genes (n = 417)

Downregulated Genes (n = 274)

Rank 

Gene Symbol

Gene Name

Fold Change

Rank 

Gene Symbol

Gene Name

Fold Change

Rank 

Gene Symbol

Gene Name

Fold Change

1

SSBP2

single-stranded DNA binding protein 2

0.040

1

PTPRZ1

protein tyrosine phosphatase, receptor-type, Z polypeptide 1

0.043

1

PSD3

pleckstrin and Sec7 domain containing 3

0.068

2

ELMO1

engulfment and cell motility 1

0.049

2

SSBP2

single-stranded DNA binding protein 2

0.053

2

MST131

MSTP131

0.099

3

ODZ2

odz, odd Oz/ten-m homolog 2 (Drosophila)

0.053

3

NLGN1

neuroligin 1

0.055

3

PLCB1

phospholipase C, beta 1 (phosphoinositide-specific)

0.106

4

PRKD1

protein kinase D1

0.068

4

CD180

CD180 molecule

0.068

4

EXOC6B

exocyst complex component 6B

0.114

5

NLGN1

neuroligin 1

0.072

5

EPHA3

EPH receptor A3

0.073

5

ELMO1

engulfment and cell motility 1

0.125

6

MLLT3

myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3

0.072

6

PRKD1

protein kinase D1

0.075

6

DPYD

dihydropyrimidine dehydrogenase

0.125

7

SBF2

SET binding factor 2

0.088

7

PSD3

pleckstrin and Sec7 domain containing 3

0.080

7

DIAPH2

diaphanous homolog 2 (Drosophila)

0.128

8

EPHA3

EPH receptor A3

0.089

8

ELMO1

engulfment and cell motility 1

0.084

8

PDE1C

phosphodiesterase 1 C, calmodulin-dependent 70 kDa

0.133

9

PSD3

pleckstrin and Sec7 domain containing 3

0.089

9

ODZ2

odz, odd Oz/ten-m homolog 2 (Drosophila)

0.084

9

FAM172A

family with sequence similarity 172, member A

0.138

10

ERC1

ELKS/RAB6-interacting/CAST family member 1

0.094

10

CASK

calcium/calmodulin-dependent serine protein kinase (MAGUK family)

0.094

10

FRMD5

FERM domain containing 5

0.139

Upregulated Genes (n = 45)

Upregulated Genes (n = 84)

Upregulated Genes (n = 9)

Rank

Gene Symbol

Gene Name

Fold Change

Rank

Gene Symbol

Gene Name

Fold Change

Rank

Gene Symbol

Gene Name

Fold Change

1

OSR2

odd-skipped related 2 (Drosophila)

6.10

1

AKAP5

A kinase (PRKA) anchor protein 5

6.42

1

DENND2C

DENN/MADD domain containing 2 C

4.28

2

HBEGF

heparin-binding EGF-like growth factor

5.12

2

SLC25A19

solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19

4.90

2

ZNF844

zinc finger protein 844

4.07

3

AKAP5

A kinase (PRKA) anchor protein 5

4.89

3

OSR2

odd-skipped related 2 (Drosophila)

4.86

3

HBEGF

heparin-binding EGF-like growth factor

4.02

4

CSNK1G1

casein kinase 1, gamma 1

4.69

4

ZNF844

zinc finger protein 844

4.79

4

OSR2

odd-skipped related 2 (Drosophila)

3.52

5

IL1A

interleukin 1, alpha

4.66

5

HBEGF

heparin-binding EGF-like growth factor

4.63

5

LRRTM2

leucine rich repeat transmembrane neuronal 2

3.44

6

GABRQ

gamma-aminobutyric acid (GABA) receptor, theta

4.28

6

CDC25A

cell division cycle 25 homolog A (S. pombe)

4.38

6

TSPYL2

TSPY-like 2

3.28

7

ZNF844

zinc finger protein844

4.03

7

ZNF684

zinc finger protein 684

4.24

7

TLCD1

TLC domain containing 1

3.10

8

E2F2

E2F transcription factor 2

3.82

8

TLCD1

TLC domain containing 1

4.10

8

RHEBL1

Ras homolog enriched in brain like 1

3.08

9

IL17RB

interleukin 17 receptor B

3.79

9

GPATCH4

G patch domain containing 4

4.06

9

GABRQ

gamma-aminobutyric acid (GABA) receptor, theta

3.00

10

B7H6

B7 homolog 6

3.75

10

CHAC2

ChaC, cation transport regulator homolog 2 (E. coli)

4.01

    
  1. The genome-wide gene expression profile was studied on Human Gene 1.0 ST array in U373MG cells following a 24 hour-exposure to the vehicle (DMSO) or to the three chemical compounds (Figure 1) individually at the concentration of IC50. The fold changes greater than 3 or smaller than 0.3333, calculated by the expression levels in the compound-treated cells divided by those in the vehicle-treated cells, were considered as substantial upregulation or downregulation. Top ten of them are listed with gene symbol, gene name, and fold change.