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Table 2 Up- and down-regulated annotated liver transcripts on a fold-change basis with WD feeding

From: Western diet-induced hepatic steatosis and alterations in the liver transcriptome in adult Brown-Norway rats

Transcript Protein function WD/CTL fold-change FDR value Nominal p-value
Top transcripts up-regulated with WD feeding (FDR < 0.05, > 2.0 fold-change)
Stearoyl-CoA desaturase (delta-9-desaturase) (Scd) Involved in fatty acid biosynthesis, primarily the synthesis of oleic acid; linked to inhibition of CPT-1A and suppression of mitochondrial fatty acid oxidation 28.392 0.01 0.00004
PDZ and LIM domain 1 (Pdlim1) Cytoskeletal protein that may act as an adapter that brings other proteins (like kinases) to the cytoskeleton 2.741 0.006 0.00002
Cytochrome P450, family 2, subfamily C, polypeptide 18 (Cyp2c18) This gene encodes a member of the cytochrome P450 superfamily of enzymes which are monooxygenases that catalyze reactions involved in drug metabolism and synthesis of cholesterol, steroids and other lipids 2.504 0.01 0.00003
Platelet factor 4 (Pf4) Chemotactic molecule for neutrophil and monocyte attraction 2.031 0.04 0.0004
Top transcripts down-regulated with WD feeding (FDR < 0.05, < −2.0 fold-change)
Cytochrome P450, family 51, subfamily A, polypeptide 1 (Cyp51a1) This gene encodes a member of the cytochrome P450 superfamily of enzymes which are monooxygenases that catalyze reactions involved in drug metabolism and synthesis of cholesterol, steroids and other lipids −8.426 0.0001 0.00000006
Transmembrane 7 superfamily member 2 (Tm7sf2) Involved in the conversion of lanosterol to cholesterol −8.381 0.007 0.00002
3-hydroxy-3-methylglutaryl-CoA synthase 1 (Hmgcs1) This enzyme condenses acetyl-CoA with acetoacetyl-CoA to form HMG-CoA, which is the substrate for HMG-CoA reductase −6.824 0.005 0.00001
Methylsterol monooxygenase 1 (Msmo1) The protein is localized to the endoplasmic reticulum membrane and is believed to function in cholesterol biosynthesis −6.482 0.002 0.000002
Zinc finger protein 48 (Znf48) May be involved in transcriptional regulation −6.458 0.00006 0.00000001
Insulin induced gene 1 (Insig1) Mediates feedback control of cholesterol synthesis −4.711 0.03 0.0002
RUN and SH3 domain containing 1 (Rusc1) Seems to be involved in signaling pathways that are regulated by the prolonged activation of MAPK; may be involved in regulation of the NF-kappa-B pathway −4.705 0.0001 0.00000008
Farnesyl diphosphate synthase (Fdps) Involved in cholesterol synthesis −4.275 0.0003 0.0000003
Fatty acid desaturase 1 (Fads1) Component of a lipid metabolic pathway that catalyzes biosynthesis of unsaturated fatty acids polyunsaturated fatty acids −3.735 0.004 0.000007
Proprotein convertase subtilisin/kexin type 9 (Pcsk9) Acts via a non-proteolytic mechanism to enhance the degradation of the hepatic low-density lipoprotein receptor −3.558 0.0001 0.0003
Cysteine sulfinic acid decarboxylase (Csad) Plays a role in multiple biological processes as the rate-limiting enzyme in taurine biosynthesis −3.023 0.049 0.0005
ATP citrate lyase (Acly) ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA in many tissues; has a central role in de novo lipid synthesis −2.879 0.049 0.0006
Acyl-CoA synthetase short-chain family member 2 (Acss2) Activates acetate so that it can be used for lipid synthesis or for energy generation −2.426 0.0001 0.00000003
Lanosterol synthase (2,3-oxidosqualene-lanosterol cyclase) (Lss) Catalyzes the cyclization of (S)-2,3 oxidosqualene to lanosterol, a reaction that forms the sterol nucleus −2.388 0.02 0.00008
Deoxyribonuclease II beta (Dnase2b) Gene is ubiquitously expressed but liver function unknown −2.344 0.02 0.0002
Phosphomevalonate kinase (Pmvk) Involved in the cholesterol biosynthetic pathway −2.278 0.004 0.000006
UDP glucuronosyltransferase 2 family, polypeptide A3 (Ugt2a3) UDP-glucuronosyltransferases are involved in the elimination of potentially toxic xenobiotics and endogenous compounds −2.129 0.009 0.00003