Supplementary Table S4.Gene features significantly different between BN and F344 dysplastic nodules
Gene symbol / Fold-changea / FDRb / Parametric p-value / Unigene cluster / DescriptionMetabolic process
Acsl1 / 2.342 / 0.234222 / 0.0009234 / Rn.6215 / Acyl-CoA synthase long-chain family member 1
Agxt / 3.438 / 0.190383 / 0.0004133 / Rn.9931 / Alanine-glyoxylate aminotransferase
Dpys / 2.627 / 0.11978 / 0.0001804 / Rn.10586 / Dihydropyrimidinase
Fmo1 / 2.238 / 0.234222 / 0.0009214 / Rn.867 / Flavin containing monooxygenase 1
Inmt / 9.766 / 0.153167 / 0.0003024 / Rn.19133 / Indolethylamine N-methyltransferase
Hao2 / 4.047 / 0.079936 / 0.0000621 / Rn.128814 / 3-beta-hydroxysteroid dehydrogenase type II
Acad9 / 0.410 / 0.20337 / 0.0005105 / Rn.13649 / Acyl-Co dehydrogenase family, member 9
Acsm2 / 0.228 / 0.079936 / 0.0000235 / Rn.14875 / Acyl-CoA synthase medium-chain member 2A
Atpif1 / 0.272 / 0.102293 / 0.0001317 / Rn1658 / ATPase inhibitory factor 1
Ddc / 0.433 / 0.238215 / 0.0009652 / Rn.11064 / Dopa decarboxylase
Fabp5 / 0.215 / 0.20776 / 0.0005948 / Rn.98269 / Fatty acid binding protein 5, epidermal
Gda / 0.402 / 0.157257 / 0.0003274 / Rn.161897 / Guanine deaminase
Gria3 / 0.337 / 0.126883 / 0.0002142 / Rn.74049 / Glutamate receptor, ionotrophic, AMPA
Grin2c / 0.396 / 0.126883 / 0.0001974 / Rn.9709 / Glutamate receptor, ionotropic, 2C
Ltb4dh / 0.133 / 0.079936 / 0.000034 / Rn.10656 / Leukotriene B4 12-hydroxydehydrogenase
St3gal5 / 0.247 / 0.102293 / 0.0001424 / Rn.22706 / ST3 β-galactoside α-2,3-sialyltransferase 5
Tubb6 / 0.257 / 0.14706 / 0.0002736 / Rn.98430 / Tubulin, beta 6
Ubd / 0.304 / 0.079936 / 0.0000595 / Rn.18473 / Ubiquitin D
DNA structure
H4b / 3.126 / 0.043688 / 0.0000322 / RN.1659 / Histone cluster 1, H4b
MLL / 2.126 / 0.346697 / 0.0006422 / Rn.100743 / Mixed lineage-leukemia gene
Angiogenesis
Crp / 2.418 / 0.234222 / 0.00092 / Rn.16463 / C-reactive protein, pentraxin-related
Cell differentiation
Enc1 / 0.418 / 0.190383 / 0.000415 / Rn.3039 / Ectodermal-neural cortex 1
Cell proliferation
G0s2 / 3.226 / 0.207617 / 0.0005702 / Rn.1040 / G0/G1 switch gene 2
Ogn / 2.244 / 0.177436 / 0.0006244 / Rn.103114 / Osteoglycin
Anxa5 / 0.329 / 0.102293 / 0.0001257 / Rn.3318 / Annexin A5
kif12 / 0.271 / 0.20776 / 0.0005952 / Rn.32294 / Kinesin family member 12
Myc / 0.282 / 0.190383 / 0.0004274 / Rn.12072 / Myelocytomatosis oncogene
Pcna / 0.526 / 0.078892 / 0.0004472 / Rn.223 / Proliferating cell nuclear antigen
Cell adhesion
Tspan3 / 5.223 / 0.045609 / 1.10E-05 / Rn.998 / Tetraspanin 3
Smoc2 / 0.193 / 0.235056 / 0.0009371 / Rn.6092 / SPARC related modular calcium binding 2
Signal transduction
Akap9 / 0.408 / 0.233564 / 0.0007998 / Rn.57458 / A kinase (PRKA) anchor protein 9
Ctgf / 0.253 / 0.207617 / 0.0005681 / Rn.17145 / Connective tissue growth factor
Igfbp1 / 0.164 / 0.24772 / 0.0005096 / Rn.26369 / Insulin-like growth factor binding protein 1
Igfbp3 / 0.193 / 0.20337 / 0.0005136 / Rn.26369 / Insulin-like growth factor binding protein 3
Tumor suppression
Csmd1 / 3.226 / 0.063387 / 0.0004688 / Rn.137916 / CUB and SUSHI multiple domain protein 1
Gnmt / 4,366 / 0.079936 / 0.0000336 / Rn.11142 / Glycine N-methyltransferase
Dmbt1 / 4.872 / 0.147382 / 0.0003829 / Rn.10107 / Deleted in malignant brain tumors 1
Dusp1 / 3.699 / 0.137792 / 0.0004473 / Rn.98260 / Dual specificity phosphatase 1
Transport
Slc10a1 / 3.491 / 0.234222 / 0.0009097 / Rn.9913 / Solute carrier family 10, member 1
Slc19a2 / 2.878 / 0.085785 / 0.0000912 / Rn.19386 / Solute carrier family 19, member 2
Gene symbol / Fold-changea / FDRb / Parametric p-value / Unigene cluster / Description
Slco1a4 / 4.564 / 0.079936 / 0.000047 / Rn.5641 / Solute carrier organic, member 1a4
Serpin4 / 2.773 / 0.234222 / 0.0008736 / Rn.11152 / Serine proteinase inhibitor, member 4
Fabp5 / 0.215 / 0.20776 / 0.0005948 / Rn.98269 / Fatty acid binding protein 5, epidermal
Slc48a1 / 0.287 / 0.230615 / 0.0007035 / Rn.32236 / Solute carrier family 48, member 1
Slc7a11 / 0.099 / 0.231988 / 0.0007664 / Rn.38677 / Solute carrier family 7 member 11
Bzrp / 0.236 / 0.079936 / 0.0000772 / Rn.1820 / Translocator protein
Oxidative stress
Ddit4l / 0.326 / 0.20337 / 0.0005055 / Rn.19672 / DNA-damage-inducible transcript 4-like
Gclm / 0.175 / 0.126883 / 0.0002086 / Rn.2460 / Glutamate cysteine ligase, modifier subunit
Gpx2 / 0.200 / 0.079936 / 0.0000745 / Rn.3503 / Glutathione peroxidase 2
Nqo1 / 0.152 / 0.20337 / 0.0005225 / Rn.11234 / NAD(P)H dehydrogenase, quinone 1
Response to stimulus
Fcgr2b / 2.682 / 0.234222 / 0.0008749 / Rn.33323 / Fc receptor, IgG, low affinity IIb
Hmgcs1 / 3.026 / 0.079936 / 0.0000707 / Rn.5106 / 3-OH-3-methylglutaryl-Co A synthase 1
S100a9 / 4.065 / 0.079936 / 0.0000478 / Rn.6703 / S100 calcium binding protein A9
Abcc3 / 0.371 / 0.231988 / 0.0007717 / Rn.205054 / ATP-binding cassette, sub-family C member 3
Ces1 / 0.313 / 0.079936 / 0.0000738 / Rn.161717 / Carboxylesterase 1
Krt1-19 / 0.170 / 0.097941 / 0.0001128 / Rn.9359 / Keratin 19
Pla2g7 / 0.073 / 0.102293 / 0.0001315 / Rn.90768 / Phospholipase A2, group VII
Respone to xenobiotics
Gstm1 / 0.349 / 0.120477 / 0.0004176 / Rn.202944 / Glutathione S-transferase, mu 1
Yc2 / 0.117 / 0.077884 / 0.0000069 / Rn.120929 / Glutathione S-transferase Yc2
Gstm2 / 0.280 / 0.190383 / 0.0004301 / Rn.625 / Glutathione S-transferase, mu 2
Generation of precursor metabolites and energy
Cyp2c / 5.970 / 0.20337 / 0.0005106 / Rn.10870 / Cytochrome P450, subfamily IIC
Cyp3a11 / 15.636 / 0.102293 / 0.000145 / Rn.91120 / Cyt. P450, family 3, subfamily a, polypeptide 11
Cyp3a13 / 4.015 / 0.234222 / 0.0009213 / Rn.10489 / Cyt. P450, family 3, subfamily a, polypeptide 9
Cyp3a18 / 4.544 / 0.079936 / 0.0000678 / Rn.32085 / Cyt. P450, family 3, subfamily a, polypeptide 18
Cyp3a3 / 13.298 / 0.107608 / 0.0001573 / Rn.91120 / Cyt. P450, family 3, subfamily a, polypeptide 2
Cyp3a8 / 6.138 / 0.168229 / 0.0002386 / Cyt. P450, family 3, subfamily a, polypeptide 8
Cyp4a12 / 5.250 / 0.079936 / 0.0000779 / Rn.10034 / Cyt. P450, family 4, subfamily a, polypeptide 8
Cyp4a14 / 5.342 / 0.130371 / 0.000231 / Rn.33492 / Cyt. P450, family 4, subfamily a, polypeptide 2
Cyp8b1 / 5.872 / 0.097941 / 0.0001086 / Rn.23013 / Cyt. P450, family 8, subfamily b, polypeptide 1
aFold change: BN:F344 expression ratio.
b FDR: False Discovery Rate.