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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