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Table 3 Significant probe sets identified by comparison of reciprocal congenic strains

From: Candidate genes for alcohol preference identified by expression profiling in alcohol-preferring and -nonpreferring reciprocal congenic rats

    Ratio of expression (iP vs P.NP and NP.P vs iNP)a
    Amygdala Nucleus accumbens Frontal cortex Hippocampus Caudate putamen Combined regions
Probe set Symbol Gene title iP
vs. P.NP
NP.P vs. iNP iP
vs. P.NP
NP.P vs. iNP iP
vs. P.NP
NP.P vs. iNP iP
vs. P.NP
NP.P vs. iNP iP
vs. P.NP
NP.P vs. iNP iP
vs. P.NP
NP.P vs. iNP
1399134_at LOC500054 similar to POT1-like telomere end-binding protein -1.13 -1.11 -1.13 -1.11 -1.07 -1.18 -1.13 -1.22 -1.06 -1.07 -1.10 -1.14
1386777_at LOC500054 similar to POT1-like telomere end-binding protein -1.04 -1.13 -1.10 -1.35 -1.10 -1.21 -1.19 -1.29 -1.05 -1.11 -1.10 -1.21
1382865_at Tsga14 testis specific gene A14 -1.06 -1.09 -1.13 -1.06 -1.05 -1.06 -1.11 -1.10 -1.00 -1.14 -1.07 -1.09
1382409_at Tsga14 testis specific gene A14 -1.06 -1.12 -1.06 -1.16 -1.09 -1.02 -1.04 -1.08 -1.09 -1.01 -1.07 -1.08
1383828_at Tsga13 EST-testis specific gene A13 (predicted) -1.25 -1.32 -1.45 -1.25 -1.19 -1.26 -1.57 -1.21 -1.26 -1.13 -1.34 -1.23
1369895_s_at Podxl podocalyxin-like 1.04 -1.01 1.00 1.15 1.05 1.01 1.04 1.08 1.03 1.06 1.03 1.06
1378956_at --- EST-similar to plexin A4 1.55 ND 2.16 ND 1.73 1.55 1.95 1.39 2.28 ND 1.91 1.41
1389291_at Chchd3 coiled-coil-helix-coiled-coil-helix domain containing 3 -1.09 -1.10 -1.06 -1.13 -1.06 -1.15 -1.11 -1.10 -1.05 -1.16 -1.08 -1.13
1378824_at --- EST-4.8 Kb at 3' side of similar to solute carrier family 35, member B4 1.06 1.08 1.09 ND 1.10 1.08 1.03 1.04 1.09 ND 1.07 1.10
1367734_at Akr1b1 aldo-keto reductase family 1, member B1 1.12 1.12 1.22 1.13 1.27 1.29 1.16 1.11 1.25 1.24 1.20 1.18
1395190_at Akr1b10 aldo-keto reductase family 1, member B10 1.28 1.12 1.55 1.27 1.21 1.21 1.34 1.05 1.23 1.38 1.32 1.20
1382034_at Akr1b10 aldo-keto reductase family 1, member B10 1.19 -1.02 -1.41 -1.08 1.09 -1.16 -1.17 -1.05 1.12 1.12 -1.02 -1.04
1383551_at Bpgm 2,3-bisphosphoglycerate mutase 1.12 1.10 1.14 -1.07 1.13 1.16 1.14 1.15 1.10 1.10 1.13 1.09
1388544_at Bpgm 2,3-bisphosphoglycerate mutase 1.09 1.08 1.10 1.11 1.11 1.14 1.10 1.13 1.08 1.06 1.10 1.10
1390042_at Tmem140 transmembrane protein 140 1.21 1.32 1.38 1.24 1.14 1.13 1.11 1.14 1.27 1.06 1.22 1.18
1383598_at Wdr91 WD repeat domain 91 (Wdr91) 1.33 1.34 1.30 ND 1.47 1.27 1.50 1.23 1.46 1.26 1.41 1.25
1378125_at --- EST-0.5 Kb at 3' side of similar to HSPC049 protein 1.32 1.28 1.46 1.22 1.35 1.32 1.42 1.24 1.42 1.31 1.40 1.27
1373746_at Wdr91 WD repeat domain 91 -1.21 -1.09 -1.30 -1.14 -1.20 -1.13 -1.26 -1.14 -1.18 -1.23 -1.23 -1.14
1373190_at Cnot4 CCR4-NOT transcription complex, subunit 4 1.00 1.09 1.02 1.16 1.02 1.01 1.07 1.14 1.03 1.00 1.03 1.08
1388441_at LOC689574 hypothetical protein LOC689574 -1.10 -1.03 1.02 -1.06 -1.05 -1.13 -1.08 -1.10 -1.04 -1.09 -1.05 -1.08
1377890_at --- EST-4.9 Kb at 3' side of solute carrier family 13, member 4 1.17 1.50 1.22 1.34 1.16 1.30 1.14 1.23 1.19 1.19 1.18 1.31
1392510_at Fam180a family with sequence similarity 180, member A 1.22 1.49 1.78 1.43 1.13 1.08 1.15 1.24 1.08 1.11 1.25 1.26
1391721_at --- EST-2.5 Kb at 5' side of cholinergic receptor, muscarinic 2 -1.55 ND -2.91 ND -1.82 -2.10 -1.71 -1.63 -1.88 ND -1.92 -1.67
1379480_at Dgki diacylglycerol kinase, iota 1.13 1.14 1.23 1.22 1.17 1.24 1.26 1.09 1.25 1.27 1.21 1.19
1395107_at Dgki EST-similar to diacylglycerol kinase iota -1.02 1.04 -1.15 1.06 1.01 -1.01 1.10 1.16 -1.01 1.02 -1.01 1.05
1393410_at --- EST-0.79 Kb at 5' side of similar to contactin associated protein-like 2 isoform a 1.00 -1.18 1.09 1.15 -1.09 -1.11 1.02 -1.06 1.03 1.00 1.01 -1.04
1390393_at --- EST-5 Kb at 5' side of similar to contactin associated protein-like 2 isoform a -1.08 -1.15 -1.01 1.01 -1.16 -1.21 -1.03 -1.12 -1.03 -1.07 -1.06 -1.11
1370007_at Pdia4 protein disulfide isomerase associated 4 1.34 1.24 1.24 1.10 1.14 1.19 1.06 1.12 1.36 1.14 1.22 1.16
1397447_at Zfp398 zinc finger protein 398 -1.04 -1.13 -1.08 -1.08 -1.04 1.01 -1.04 -1.02 -1.06 1.01 -1.05 -1.04
1380094_a_at Zfp212 zinc finger protein 212 1.22 ND 1.30 ND 1.21 ND 1.28 1.15 1.43 ND 1.29 1.16
1390625_at RGD1304879 similar to zinc finger protein 398 (zinc finger DNA binding protein p52/p71) 1.43 1.40 1.27 1.39 1.33 1.20 1.30 1.36 1.46 1.22 1.36 1.31
1377600_at Znf777 zinc finger protein 777 1.08 1.10 1.07 -1.00 1.09 1.12 1.13 1.08 1.03 1.10 1.08 1.08
1375914_at Krba1 KRAB-A domain containing 1 -1.04 -1.07 -1.07 1.04 -1.07 -1.02 -1.05 -1.14 -1.06 -1.12 -1.06 -1.06
1371691_at Rarres2 retinoic acid receptor responder (tazarotene induced) 2 -1.14 -1.01 1.12 -1.09 -1.16 -1.22 -1.23 -1.19 -1.01 -1.08 -1.08 -1.11
1376401_at RGD1561107 EST-replication initiator 1 1.12 1.10 1.16 1.13 1.19 1.12 1.13 1.13 1.18 1.14 1.15 1.12
1382755_at Tra2a rranscribed locus 1.11 1.16 -1.13 -1.12 1.07 1.20 1.13 1.32 1.11 1.43 1.06 1.19
1387154_at Npy neuropeptide Y -1.04 -1.19 -1.06 1.12 -1.11 -1.11 -1.09 -1.14 -1.08 -1.05 -1.08 -1.07
1380062_at Mpp6 membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6) 1.02 1.00 1.03 -1.09 1.07 1.04 1.13 1.19 1.06 1.02 1.06 1.03
1383324_at Mpp6 membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6) 1.01 1.09 1.10 -1.01 1.11 1.12 1.10 1.20 1.06 1.09 1.07 1.10
1397419_at Mpp6 membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6) -1.02 1.12 1.12 1.01 1.18 1.13 1.14 1.22 1.07 1.10 1.09 1.11
1397949_at --- EST-similar to MAGUK p55 subfamily member 6 -1.00 1.13 1.16 1.06 1.15 1.18 1.15 1.20 1.07 1.12 1.10 1.14
1398627_at --- EST- similar to MAGUK p55 subfamily member 6 -1.01 1.04 1.05 1.10 1.09 1.09 1.07 1.16 1.04 1.02 1.05 1.08
1384136_at Osbpl3 oxysterol binding protein-like 3 -1.06 -1.03 -1.09 1.07 -1.15 -1.03 -1.12 -1.16 -1.15 -1.06 -1.11 -1.04
1378543_at Hnrnpa2b1 EST-heterogeneous nuclear ribonucleoprotein A2/B1 (predicted) -1.31 -1.23 -1.26 -1.18 -1.17 -1.35 -1.16 -1.16 -1.19 -1.25 -1.22 -1.23
1371395_at Cbx3 chromobox homolog 3 (HP1 gamma homolog, Drosophila) -1.07 -1.07 -1.04 -1.00 -1.04 -1.02 -1.03 -1.03 -1.05 -1.10 -1.04 -1.04
1379275_at Snx10 sorting nexin 10 2.18 1.40 1.67 -1.05 1.94 1.58 1.69 1.58 2.02 1.55 1.89 1.39
1383585_s_at Snx10 EST-sorting nexin 10 -1.10 -1.17 -1.08 -1.05 -1.12 -1.09 -1.06 -1.03 -1.08 -1.26 -1.09 -1.12
1377198_at --- EST-2 Kb at 3' side of src family associated phosphoprotein 2 -1.23 -1.33 -1.16 -1.09 -1.10 -1.09 -1.10 -1.19 -1.03 -1.15 -1.12 -1.17
1369979_at Skap2 src family associated phosphoprotein 2 -1.20 -1.22 -1.11 -1.04 -1.03 -1.16 -1.05 -1.07 1.01 -1.12 -1.07 -1.12
1388118_at Hibadh 3-hydroxyisobutyrate dehydrogenase -1.07 -1.01 -1.01 -1.04 -1.05 -1.09 -1.05 -1.03 -1.06 -1.05 -1.05 -1.04
1378742_at LOC682099 EST-similar to juxtaposed with another zinc finger protein 1 2.05 1.64 1.92 1.80 2.11 1.71 1.85 1.76 1.83 1.43 1.95 1.66
1379629_at --- EST-4.7 kb at 5' side of similar to cAMP responsive element binding protein 5 isoform alpha -1.38 -1.35 -1.40 -1.37 -1.34 -1.27 -1.42 -1.20 -1.41 -1.34 -1.39 -1.30
1394833_at --- EST-0.6 Kb at 5' side of beta chimerin -1.12 -1.15 -1.04 -1.19 -1.08 1.02 -1.06 -1.10 1.08 -1.03 -1.04 -1.09
1370648_a_at Wipf3 WAS/WASL interacting protein family, member 3 1.01 1.18 -1.01 1.00 -1.01 1.09 1.00 -1.10 1.11 1.12 1.02 1.06
1392541_at Ggct gamma-glutamyl cyclotransferase -1.34 -1.19 -1.28 -1.06 -1.26 -1.26 -1.18 -1.08 -1.33 -1.26 -1.28 -1.16
1398107_at Ggct gamma-glutamyl cyclotransferase -1.10 -1.15 -1.02 1.14 -1.17 ND -1.06 -1.07 -1.15 -1.00 -1.10 -1.03
1394973_at Pde1c EST-cyclic nucleotide phosphodiesterase 1 C 1.14 -1.01 1.08 1.09 1.02 1.02 -1.02 -1.01 1.37 1.16 1.11 1.05
1375640_at Fkbp9 FK506 binding protein 9 -1.05 1.28 1.23 1.01 1.15 1.04 1.02 1.01 1.07 1.05 1.08 1.07
1388493_at Ecop EGFR-coamplified and overexpressed protein -1.05 -1.10 -1.04 -1.00 -1.10 -1.09 -1.05 -1.05 -1.11 -1.09 -1.07 -1.06
1396215_at --- EST-similar to RIKEN cDNA 2610022G08 1.01 -1.07 -1.07 -1.10 -1.03 -1.07 -1.08 -1.07 -1.14 -1.20 -1.06 -1.10
1394939_at Ppm1k protein phosphatase 1 K (PP2C domain containing) -1.74 -2.67 -2.05 -2.36 -2.79 -2.57 -1.86 -2.05 -2.39 -2.05 -2.13 -2.33
1392921_at Ppm1k Protein phosphatase 1 K (PP2C domain containing) -1.07 -1.22 -1.21 -1.19 -1.12 -1.16 -1.14 -1.22 -1.15 -1.12 -1.14 -1.18
1388778_at --- EST-3.6 Kb at 5' side of similar to protein phosphatase 1 K (PP2C domain containing) -1.27 -1.27 -1.27 -1.17 -1.18 -1.27 -1.22 -1.23 -1.22 -1.26 -1.23 -1.24
1367977_at Snca synuclein, alpha 1.03 -1.08 -1.04 -1.11 -1.10 -1.09 1.07 1.03 -1.12 -1.12 -1.03 -1.07
1385271_at RGD1565731 EST-similar to KIAA1680 protein (predicted) -1.02 1.04 -1.05 -1.08 -1.03 -1.02 -1.20 -1.11 -1.09 -1.01 -1.08 -1.04
1391945_at --- Transcribed locus 2.01 1.33 2.37 1.60 1.54 1.38 1.88 1.30 2.61 1.70 2.05 1.45
1393607_at Grid2 EST-glutamate receptor, ionotropic, delta 2 -1.27 -1.34 -1.13 1.04 -1.17 -1.14 -1.12 -1.23 -1.02 -1.08 -1.14 -1.14
1386869_at Actg2 actin, gamma 2, smooth muscle, enteric 1.03 1.05 1.07 -1.11 1.03 -1.00 -1.06 -1.10 -1.01 -1.02 1.01 -1.03
1379610_at --- EST 1.19 1.31 -1.00 ND 1.14 1.03 1.24 1.07 -1.03 ND 1.10 1.06
1376481_at Adamts9 a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 9 1.09 1.30 1.16 ND 1.22 ND 1.30 1.28 1.27 ND 1.20 1.18
1376747_at --- EST, strongly similar to membrane associated guanylate kinase, WW and PDZ domain containing 1 isoform b [Mus musculus] -1.11 -1.22 1.00 1.05 -1.25 -1.12 1.06 1.02 -1.20 -1.13 -1.09 -1.08
1381871_at NA Transcribed locus 1.21 1.20 -1.05 1.90 1.28 1.49 1.31 1.42 1.19 1.08 1.18 1.39
1384504_at Magi1 membrane associated guanylate kinase, WW and PDZ domain containing 1 1.15 1.05 1.05 1.41 1.16 1.20 1.20 1.08 1.08 1.17 1.13 1.17
1397438_at Magi1 membrane associated guanylate kinase, WW and PDZ domain containing 1 1.26 1.01 1.12 1.09 ND 1.02 1.26 ND 1.17 1.08 1.18 1.04
  1. Comparison of iP versus P.NP (this paper) and NP.P versus iNP [47] data. Probe sets that were significant (at P ≤ 0.05) with consistent direction in at least one brain region or in the average of the brain regions were analyzed. aPositive number is the ratio of the expression level of iP/P.NP (this paper) or NP.P/iNP [47] (that is, in both cases expression is higher in the strain with the P alleles in the introgressed region); negative numbers indicate the ratio of expression level of P.NP/iP (this paper) or iNP/NP.P [47]. Bold numbers indicate significant ratio of expression. ND indicates not detectable. The probe sets were sorted by genomic location; all are on chromosome 4.