Table 2

Changes in mRNA levels of several transcripts associated with metabolism or muscle growth in skeletal muscle of obese older men versus healthy-weight older men

PathwayGeneGene codeProbe identifierFold change * P valueFDR
ApoptosisApoptotic peptidase activating factor 1 APAF1 Hs005594411.040.5820.856
B-cell CLL/lymphoma 2 BCL2 Hs006080231.190.0550.291
Caspase 8 CASP8 Hs010181511.040.7270.894
Caspase 9 CASP9 Hs001542610.970.6370.861
Diablo, IAP-binding mitochondrial protein DIABLO Hs002198760.980.6930.890
AutophagyBCL2/adenovirus E1B 19kda interacting protein 3 BNIP3 Hs009692911.070.2690.676
Dynamin 1-like DNM1L Hs002471470.910.0270.223
GABA(A) receptor-associated protein GABARAP Hs009258990.880.0280.223
Calcium releaseRyanodine receptor 1 RYR1 Hs001669911.000.9880.988
Ryanodine receptor 3 RYR3 Hs001688210.650.0330.223
Carbohydrate metabolismCreatine kinase CKM Hs001764900.210.4110.839
Lactate dehydrogenase B LDHB Hs009299560.910.9190.985
NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 5 NDUFA5 Hs006062730.830.0080.102
Pyruvate dehydrogenase kinase, isozyme 4 PDK4 Hs001768751.100.7860.932
Solute carrier family 22 (organic cation/ergothioneine transporter), member 4 GLUT4 Hs002682000.890.8140.953
InflammationInterleukin-6 IL-6 Hs009856390.670.4050.839
Metallothionein 1A MT1A Hs008318260.840.5330.856
Tumor necrosis factor α TNFα Hs999990430.800.4230.839
Insulin signalingEukaryotic translation initiation factor 2 beta, subunit 2 beta EIF2B2 Hs002045400.840.0150.162
Mitogen-activated protein kinase 3 MAPK3 Hs003850750.900.060.306
Mitogen-activated protein kinase kinase 1 MAP2K1 Hs006056151.040.5680.856
Phosphoinositide-3-kinase, regulatory subunit 1 (alpha) PIK3R1 Hs009331630.590.1480.489
Protein kinase, AMP-activated, alpha 1 catalytic subunit PRKAA1 Hs015623080.940.1410.482
Ras homolog family member Q RHOQ Hs008176291.070.1830.550
RAS p21 protein activator (GTpase activating protein) 1 RASA1 Hs002431150.980.7100.890
Ras-related GTP binding A RRAGA Hs005389751.010.7790.932
V-AKT murine thymoma viral oncogene homolog 2 AKT2 Hs010861020.950.2750.676
Lipid metabolismCarnitine palmitoyltransferase 1B CPT1B Hs009938960.780.0800.322
Carnitine transporter OCTN2 SLC22A5 Hs001618950.690.1640.524
Farnesyl diphosphate synthase FDPS Hs002666350.950.6660.876
Fatty acid binding protein 3 FABP3 Hs002697580.790.1070.411
Fatty acid synthase FASN Hs001880121.120.4890.856
Fatty acid translocase/CD36 CD36 Hs001696270.930.4130.839
Heat shock 70kDa protein 5 HSPA5 Hs999991741.040.5750.856
NADH dehydrogenase (ubiquinone) Fe-S protein4 NDUFS4 Hs009425680.870.0680.322
Protein kinase C, alpha PRKCA Hs009251950.940.5550.856
Protein kinase C, epsilon PRKCE Hs001784551.020.8590.963
Protein kinase C, iota PRKCI Hs007022541.060.5480.856
Protein kinase C, theta PRKCQ Hs009899700.970.6300.861
Stearoyl-CoA desaturase 1 SCD Hs016827611.300.5500.856
Myogenesis CD34 molecule CD34 Hs00990732 0.79 0.004 0.068
M-cadherin 15 CDH15 Hs001705041.090.2920.700
Met proto-oncogene MET Hs015655841.130.1910.556
Myogenic factor 5 MYF5 Hs002715741.210.0290.223
Ras homolog enriched in brain RHEB Hs009508001.000.9710.985
Ras homolog family member A RHOA Hs002369381.060.2470.659
Ras homolog family member B RHOB Hs002696601.090.3670.820
Rho-associated, coiled-coil containing protein kinase 1 ROCK1 Hs001784631.000.9490.985
V-Ha-ras Harvey rat sarcoma viral oncogene homolog HRAS Hs006104830.990.8630.963
Organic anion transporter Solute carrier organic anion transporter family, member 1B1 SLCO1B1 Hs00272374 0.05 0.004 0.068
Oxidative phosphorylation/electronic transport chainCoenzyme Q10 homolog B COQ10B Hs002578611.240.4970.856
COX-I, cytochrome C oxidase 1 MT-CO1 Hs025968640.810.0310.223
COX-II, cytochrome C oxidase 2 MT-CO2 Hs001531330.710.4720.856
Cytochrome c CYCS Hs01588974 0.70 0.000 0.014
Cytochrome c oxidase subunit via polypeptide 1 COX7A1 Hs001569890.850.0740.322
Succinate dehydrogenase complex II SDHA Hs001881660.890.0770.322
Ubiquinol-cytochrome c reductase, complex III UQCRQ Hs004169270.850.0550.291
ProteolysisCalpain 1 CAPN1 Hs005598041.030.5130.856
Calpain 2 CAPN2 Hs009650920.960.4770.856
Calpain 3 (p94) CAPN3 Hs005449751.030.5930.856
Calpastatin CAST Hs001562801.010.9430.985
Cathepsin L1 CTSL1 Hs003776320.920.2010.568
F-box protein 32 MAFbx Hs010414081.020.8400.963
Matrix metallopeptidase 2 MMP2 Hs015487271.060.5950.856
Proteasome subunit, beta 1 PSMB1 Hs004273571.040.6660.876
Proteasome subunit, beta 2 PSMB2 Hs010029461.030.6040.856
Proteasome subunit, beta 5 PSMB5 Hs006056521.020.7140.890
Tripartite motif containing 63, E3 ubiquitin protein ligase MuRF1 Hs002615900.850.3100.726
Ubiquitin B UBB Hs004302901.000.9750.985
Ubiquitin C UBC Hs008247231.060.5480.856
Ubiquitin specific peptidase 19 USP19 Hs003241231.060.2260.619
Regulator of cell growth Myostatin MSTN Hs00976237 1.8 0.004 0.068
Transcription factorActivating transcription factor 3 ATF3 Hs002310690.890.6060.856
Forkhead box O1 FOXO1 Hs002311061.010.9590.985
Forkhead box O3 FOXO3 Hs008181210.960.7040.890
Inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta IKBKB Hs002332870.950.5320.856
Jun proto-oncogene JUN Hs002771901.080.3800.829
Myocyte enhancer factor 2C MEF2C Hs002311491.000.9720.985
Myogenic differentiation 1 MYOD1 Hs001595281.010.9240.985
Myogenin (myogenic factor 4) MYOG Hs002311671.190.0460.286
Nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 NFKB1 Hs007657301.120.0480.286
Nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) NFKB2 Hs001745171.060.5190.856
Peroxisome proliferator activated receptor alpha PPARA Hs00231882 0.77 0.002 0.068
Peroxisome proliferator activated receptor delta PPARD Hs006026220.940.2730.676
Peroxisome proliferator activated receptor gamma PPARG Hs011155130.850.0810.322
Peroxisome proliferator activated receptor gamma, coactivator 1 alpha PPARGC1A Hs01016724 0.67 0.002 0.068
Sterol regulatory element binding transcription factor 1 SREBF1 Hs010886911.110.4280.839
Sterol regulatory element binding transcription factor 2 SREBF2 Hs010817781.020.7850.932
Transcription factor A, mitochondrial TFAM Hs01082775 0.88 0.006 0.088
V-rel reticuloendotheliosis viral oncogene homolog A RELA Hs001532941.000.960.985
  • Seven genes (bold) satisfied the criterion of false discovery rate (FDR) <0.1 and were considered differentially expressed.

  • *Fold change is expressed relative to healthy-weight subjects.