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Table 3 Gene expression results obtained by microarrays and qPCR.

From: Gene expression profiling in the striatum of inbred mouse strains with distinct opioid-related phenotypes

Gene

Affy ID PCR assay ID (exon boundary)

Strain

Microarray (MBEI)a (n = 5)

qPCR Ib (n = 6–9)

qPCR IIc (n = 6)

   

1d

2

  

ATPase, Na+/K+ transporting, alpha 2 polypeptide (Atp1a2)

(1)1427465_at

(2)1455136_at

Mm00617899_m1

(20/21)

C57

1.24 ± 0.08

0.52 ± 0.08

1.15 ± 0.07

1.19 ± 0.12

  

DBA

0.98 ± 0.07

1.39 ± 0.1

0.9 ± .0.06

0.96 ± 0.17

  

129

0.9 ± 0.06

1.08 ± 0.06

0.89 ± 0.1

0.83 ± 0.15

  

SWR

0.88 ± 0.07

1.02 ± 0.05

1.06 ± 0.09

0.98 ± 0.07

Catechol-O-methyltransferase (Comt)

1418701_at

Mm00514377_m1

(4/5)

C57

0.48 ± 0.08

1.48 ± 0.08

1.59 ± 0.06

  

DBA

1.17 ± 0.04

0.93 ± 0.05

0.9 ± 0.08

  

129

1.19 ± 0.07

0.89 ± 0.05

0.78 ± 0.07

  

SWR

1.16 ± 0.11

0.71 ± 0.09

0.76 ± 0.08

Gamma-aminobutyric acid receptor (GABA-A), subunit alpha 1 (Gabra1)

1436889_at

Mm00439040_m1

(2/3)

C57

1.09 ± 0.03

1.62 ± 0.1

1.46 ± 0.1

  

DBA

0.76 ± 0.02

0.74 ± 0.24

0.82 ± 0.04

  

129

1.09 ± 0.05

0.81 ± 0.31

0.96 ± 0.08

  

SWR

1.06 ± 0.04

0.83 ± 0.33

0.78 ± 0.03

Gamma-aminobutyric acid receptor (GABA-A), subunit alpha 2 (Gabra2)

(1)1443865_at

(2)1455444_at

Mm00433435_m1

(5/6)

C57

0.55 ± 0.06

0.57 ± 0.03

0.43 ± 0.07

0.26 ± 0.08

  

DBA

1.08 ± 0.11

1.09 ± 0.07

1.26 ± 0.09

1.13 ± 0.08

  

129

1.2 ± 0.07

1.21 ± 0.04

1.25 ± 0.08

1.31 ± 0.07

  

SWR

1.17 ± 0.07

1.13 ± 0.05

1.06 ± 0.1

1.05 ± 0.05

Glutamate receptor, metabotropic 7 (Grm7)

1459532_at

Primers and probe sequence are available on request

(2)

C57

0.46 ± 0.14

1.09 ± 0.11

1.03 ± 0.13

  

DBA

2.86 ± 0.16

0.73 ± 0.13

0.66 ± 0.32

  

129

0.32 ± 0.14

1.46 ± 0.11

1.21 ± .013

  

SWR

0.36 ± 0.14

0.72 ± 0.18

1.00 ± 0.12

Potassium inwardly-rectifying channel, subfamily J, member 9 (Kcnj9)

1450712_at

Mm00434623_m1

(3/4)

C57

0.42 ± 0.13

0.48 ± .0.08

0.51 ± 0.16

  

DBA

1.18 ± 0.12

1.23 ± 0.05

1.25 ± 0.11

  

129

0.94 ± 0.06

1.16 ± 0.07

1.15 ± .0.08

  

SWR

1.46 ± 0.11

1.13 ± 0.05

1.15 ± 0.08

Synaptotagmin IV (Syt4)

1415844_at

Mm00436870_m1

(1/2)

C57

1.33 ± 0.01

nte

1.51 ± 0.18

  

DBA

1.21 ± 0.07

nt

1.06 ± 0.03

  

129

0.71 ± 0.08

nt

0.86 ± 0.23

  

SWR

0.75 ± 0.06

nt

0.61 ± 0.13

Glial fibrillary acidic protein (Gfap)

1440142_s_at

Mm01253033_m1

(6/7)

C57

1.29 ± 0.09

1.29 ± 0.12

1.12 ± 0.08

  

DBA

0.78 ± 0.12

0.88 ± 0.11

0.88 ± 0.06

  

129

0.5 ± 0.07

0.7 ± 0.13

0.78 ± 0.11

  

SWR

1.43 ± 0.05

1.12 ± 0.07

1.14 ± 0.07

Microtubule-associated protein 2 (Mtap2)

1440699_at

Mm00485230_m1

(3/4)

C57

0.62 ± 0.15

nt

0.94 ± 0.14

  

DBA

1.12 ± 0.05

nt

1.03 ± 0.21

  

129

1.22 ± 0.03

nt

1.19 ± 0.18

  

SWR

1.13 ± 0.05

nt

0.84 ± 0.26

Hypoxanthine guanine phosphoribosyl transferase 1 (Hprt1)

1448736_a_at

Mm00446968_m1

(6/7)

C57

1.03 ± 0.04

1.09 ± 0.09

1.1 ± 0.1

  

DBA

1.01 ± 0.03

1.02 ± 0.04

0.93 ± 0.08

  

129

1 ± 0.02

1 ± 0.08

1.02 ± 0.04

  

SWR

0.97 ± 0.04

0.9 ± 0.09

0.88 ± 0.11

  1. Results are presented as fold change of average expression level across all the four mouse strains ± standard error of the mean. Results with fold change above 1.5 are bolded. Taqman used in qPCR experiments are described by assay ID and exon boundary.
  2. a relative expression levels from probe-sets significantly different between the strains were obtained by using MBEI algorithm.
  3. b qPCR I was carried out on individual samples used also for microarray hybridization
  4. c qPCR II was performed on independent samples
  5. d two genes (Atp1a2 and Gabra2) are represented by more than one probe-set.
  6. e nt – gene was not tested
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BMC Genomics

ISSN: 1471-2164

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