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Table 2 Top canonical pathways and corresponding genes modulated by Padma 28 in HepG2 cells

From: Pathway-focused bioassays and transcriptome analysis contribute to a better activity monitoring of complex herbal remedies

  

Microarray (n=1)

RT-PCR (n=5)

Pathway/Gene

Gene title

log2 (ratio)

Fold

Fold

P(H1)

Metabolism of xenobiotics by cytochrome P450 (p-value: 3.82E-05; ratio: 10/178)

CYP1A1

cytochrome P450, family 1, subfamily A1

8.7

408.4

123.4 ± 31.1

0.001

PTGR1

prostaglandin reductase 1

4.8

27.9

  

GSTA1

glutathione S-transferase alpha 1

2.6

6.1

4.5 ± 1.3

0.036

AKR1C2

aldo-keto reductase family 1, member C2

2.4

5.3

6.7 ± 1.2

0.007

AKR1C1

aldo-keto reductase family 1, member C1

2.1

4.3

6.7 ± 1.2

0.007

CYP4F11

cytochrome P450, family 4, subfamily F 11

1.7

3.2

  

MGST1

microsomal glutathione S-transferase 1

1.6

3.0

  

ALDH1L1

aldehyde dehydrogenase 1 family, member L1

1.6

3.0

4.1 ± 1.0

0.003

EPHX1

epoxide hydrolase 1, microsomal

1.3

2.5

  

CYP2S1

cytochrome P450, family 2, subfamily S1

1.2

2.2

5.1 ± 1.5

0.018

Glutathione metabolism (p-value: 4,01E-04; ratio 7/92)

GSTA1

glutathione S-transferase alpha 1

2.6

6.1

4.5 ± 1.3

0.036

GCLM

glutamate-cysteine ligase, modifier subunit

2.1

4.1

  

GCLC

glutamate-cysteine ligase, catalytic subunit

1.7

3.3

5.8 ± 0.9

0.009

MGST1

microsomal glutathione S-transferase 1

1.6

3.0

  

GPX2

glutathione peroxidase 2

1.2

2.3

0.3 ± 0.9

0.881

RAB15

RAB15, member RAS onocogene family

1.1

2.1

  

IDH3A

isocitrate dehydrogenase 3 (NAD+) alpha

1.1

2.1

  

Aminoacyl-tRNA biosynthesis (p-value: 4.24E-04; ratio 6/83)

CARS

cysteinyl-tRNA synthetase

2.1

4.3

3.2 ± 0.6

0.001

YARS

tyrosyl-tRNA synthetase

1.3

2.5

  

WARS

tryptophanyl-tRNA synthetase

1.2

2.4

3.8 ± 1.0

0.020

GARS

glycyl-tRNA synthetase

1.2

2.3

  

AARS

alanyl-tRNA synthetase

1.2

2.3

  

MARS

methionyl-tRNA synthetase

1.1

2.2

  

LPS/IL-1 mediated inhibition of RXR function (p-value: 1.82E-03; ratio 12/205)

GSTA1

glutathione S-transferase alpha 1

2.6

6.1

4.5 ± 1.3

0.036

CD14

CD14 molecule

2.4

5.3

  

ABCC4

ATP-binding cassette, sub-family C, member 4

2.1

4.3

  

ABCC3

ATP-binding cassette, sub-family C, member 3

1.8

3.5

  

MGST1

microsomal glutathione S-transferase 1

1.6

3.0

  

ALDH1L1

aldehyde dehydrogenase 1 family, member L1

1.6

3.0

4.1 ± 1.0

0.003

NR1H3

nuclear receptor subfamily 1, group H, member 3

1.5

2.8

  

ALDH1A1

aldehyde dehydrogenase 1 family, member A1

1.3

2.5

  

SLC35A2

solute carrier family 35, member A2

1.1

2.1

  

SULT1E1

sulfotransferase family 1E, member 1

-1.3

-2.5

  

SLCO1B3

solute carrier organic anion transporter 1B3

-1.3

-2.5

  

FMO5

flavin containing monooxygenase 5

-1.9

-3.7

  

Nrf2-mediated oxidative stress response(p-value: 2.92E-03; ratio 11/181)

GSTA1

glutathione S-transferase alpha 1

2.6

6.1

4.5 ± 1.3

0.036

HMOX1

heme oxygenase (decycling) 1

2.1

4.3

5.3 ± 0.8

0.008

GCLM

glutamate-cysteine ligase, modifier subunit

2.1

4.3

  

GCLC

glutamate-cysteine ligase, catalytic subunit

1.7

3.3

5.8 ± 0.9

0.009

NQO1

NAD(P)H dehydrogenase, quinone 1

1.7

3.2

  

MGST1

microsomal glutathione S-transferase 1

1.6

3.0

  

EPHX1

epoxide hydrolase 1, microsomal (xenobiotic)

1.3

2.5

  

FTH1

ferritin, heavy polypeptide 1

1.3

2.5

  

TXNRD1

thioredoxin reductase 1

1.3

2.5

  

GPX2

glutathione peroxidase 2 (gastrointestinal)

1.2

2.3

0.3 ± 0.9

0.881

SLC35A2

solute carrier family 35 , member A2

1.1

2.1

  

Aryl Hydrocarbon Receptor Signaling (p-value: 4.65E-03; ratio 9/150)

CYP1A1

cytochrome P450, family 1, subfamily A1

8.7

408.4

123.4 ± 31.1

0.001

GSTA1

glutathione S-transferase alpha 1

2.6

6.1

4.5 ± 1.3

0.036

NQO1

NAD(P)H dehydrogenase, quinone 1

1.7

3.2

  

FAS

Fas (TNF receptor superfamily, member 6)

1.7

3.2

  

MGST1

microsomal glutathione S-transferase 1

1.6

3.0

  

ALDH1L1

aldehyde dehydrogenase 1 family, member L1

1.6

3.0

4.1 ± 1.0

0.003

ALDH1A1

aldehyde dehydrogenase 1 family, member A1

1.3

2.5

  

SLC35A2

solute carrier family 35, member A2

1.1

2.1

  

NCOA2

nuclear receptor coactivator 2

-1.1

-2.1

  
  1. The p-value is a measure of the probability of the association of a specific pathway and the dataset. The ratio indicates the number of molecules in a given pathway from the input dataset that meet the cut-off criteria (fold change of 2) divided by the number of molecules that make up that pathway in the database.
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BMC Genomics

ISSN: 1471-2164

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