Table 1.

NFBD1 shRNA-regulated genes identified by microarray analysis

0 Gy5 Gy
PathwaySymbolDescriptionlog2FC NFBD1log2FC p53log2FC NFBD1/p53log2FC NFBD1log2FC p53log2FC NFBD1/p53
focal adhesionCAV2caveolin 2−0.973−0.899−0.839−0.852
CAV2caveolin 2−0.716−0.743−0.662−0.664
PPP1CCProtein phosphatase 1, catalytic subunit, gamma isoform−0.534−0.516−0.786−0.504
CAV1Caveolin 1, caveolae protein, 22kDa−0.664−0.656−0.604−0.498
CAV1Caveolin 1, caveolae protein, 22kDa−0.537−0.482−0.664
PTENPhosphatase and tensin homolog (mutated in multiple advanced cancers 1)−0.425−0.374−0.373−0.448
PTENPhosphatase and tensin homolog (mutated in multiple advanced cancers 1)−0.293−0.324−0.431−0.389
LAMA5Laminin, alpha 5−0.661−0.519
LAMB3Laminin, beta 3−0.319−0.239−0.346−0.392
LAMB2Laminin, beta 2 (laminin S)−0.267−0.347
RAF1v-raf-1 murine leukemia viral oncogene homolog 1−0.349−0.353
CCND2Cyclin D20.3400.232
THBS3Thrombospondin 3−0.266
TLN2Talin 2−0.243
COL5A1Collagen, type V, alpha 1−0.492−0.536
GRB2Growth factor receptor-bound protein 2−0.254
CAPN2Calpain 2, (m/II) large subunit−0.191−0.180
PDGFRBPlatelet-derived growth factor receptor, beta polypeptide−0.242−0.271
Jak-STATBCL2L1BCL2-like 1−0.541−0.232−0.560−0.523−0.343−0.771
BCL2L1BCL2-like 1−0.4430.179−0.351−0.523−0.263−0.394
IFNAR1Interferon (alpha, beta and omega) receptor 1−0.292−0.438
IL12AInterleukin 12A (natural killer cell stimulatory factor 1, cytotoxic lymphocyte maturation factor 1, p35)0.1800.2940.186
STAMSignal transducing adaptor molecule (SH3 domain and ITAM motif) 1−0.598−0.559−0.593−0.442
LEPRLeptin receptor−0.360−0.307
IL21RInterleukin 21 receptor0.1150.171
IL7RInterleukin 7 receptor−0.277−0.230−0.364
IL11Interleukin 110.1790.1330.162
Jak-STATCCND2Cyclin D20.3950.3400.232
CCND2Cyclin D20.499
IL13RA2Interleukin 13 receptor, alpha 20.245
GRB2Growth factor receptor-bound protein 2−0.254
GHRGrowth hormone receptor−0.201
SOCS2Suppressor of cytokine signaling 20.157
InsulinPPP1CCProtein phosphatase 1, catalytic subunit, gamma isoform−0.534−0.516−0.786−0.504
NRASNeuroblastoma RAS viral (v-ras) oncogene homolog−0.448−0.430−0.459−0.316
IRS1Insulin receptor substrate 1−0.382−0.353−0.3470.288
EXOC7Exocyst complex component 7−0.532
RAF1v-raf-1 murine leukemia viral oncogene homolog 1−0.349−0.353
GRB2Growth factor receptor-bound protein 2−0.254
MKNK2MAP kinase interacting serine/threonine kinase 20.160
TSC1Tuberous sclerosis 1−0.221
PRKAR2AProtein kinase, cAMP-dependent, regulatory, type II, alpha−0.267
SOCS2Suppressor of cytokine signaling 20.57
FLOT2Flotillin 2−0.276
TGF-betaINHBEInhibin, beta E0.6700.4710.4610.572
TGFBR3Transforming growth factor, beta receptor III−0.505
TIAF1TGFB1-induced anti-apoptotic factor 1−0.517
SMAD6SMAD family member 6–0.280−0.386
SMAD3SMAD family member 3−0.474
SKP1S-phase kinase-associated protein 1−0.420−0.3210.249−0.365−0.290
PPP2R2CProtein phosphatase 2 (formerly 2A), regulatory subunit B, gamma isoform−0.354
THBS3Thrombospondin 3−0.266
TGFBR1Transforming growth factor, beta receptor I (activin A receptor type II-like kinase, 53kDa)−0.109
carbohydrateADRA1BAdrenergic, alpha-1B-, receptor−0.4470.240−0.396−0.227
metabolismCSCitrate synthase−0.580−0.511−0.559−0.483
IDH1Isocitrate dehydrogenase 1 (NADP+), soluble−0.476−0.537−0.352−0.477
LAMP2Lysosomal-associated membrane protein 2−1.257−1.225−1.014−1.065
LAMP2Lysosomal-associated membrane protein 2−1.121−0.813−0.911−1.001
PGM3Phosphoglucomutase 3−0.389−0.362−0.415−0.478
PPP1CCProtein phosphatase 1, catalytic subunit, gamma isoform−0.786−0.504−0.534−0.516
SLC2A3Solute carrier family 2 (facilitated glucose transporter), member 3−0.495−0.471−0.749−0.409−0.444−0.710
B4GALT4UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 4−0.292−0.377−0.402−0.439
B4GALT4UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 4−0.730−0.569−0.646−0.536
SUCLA2Succinate-CoA ligase, ADP-forming, beta subunit−0.349−0.348−0.400−0.413
SUCLA2Succinate-CoA ligase, ADP-forming, beta subunit−0.466−0.246−0.392−0.362
POFUT1Protein O-fucosyltransferase 1−1.046−1.012−0.906−0.864
PGM2Phosphoglucomutase 2−0.413−0.378−0.385−0.405
RNA splicingNCBP1Nuclear cap binding protein subunit 1, 80kDa−0.732−0.462−0.567−0.533
PPP1R8Protein phosphatase 1, regulatory (inhibitor) subunit 8−0.3010.249−0.2610.188
PTBP1Polypyrimidine tract binding protein 1−0.613−0.506−0.332−0.254
PTBP1Polypyrimidine tract binding protein 1−0.599−0.353
RBM9RNA binding motif protein 90.208−0.222−0.201−0.102
PTBP2Polypyrimidine tract binding protein 20.6010.5300.8000.522
PTBP2Polypyrimidine tract binding protein 20.5340.4480.6350.591
THOC3THO complex 3−0.631−0.568−0.724−0.722
THOC3THO complex 3−0.607−0.417−0.712−0.687

NOTE: NFBD1 shRNA-regulated genes identified by Illumina microarray analysis are listed (second and third columns from the left). Genes with the highest fold change and representative pathways (leftmost column) are listed. The log2 fold change caused by NFBD1 or p53 shRNA is indicated in the presence and absence of IR (6 rightmost columns). If the gene did not appear in the list of top 1000 most significant (based on the P-value of the three biological replicates) genes regulated by a given shRNA or IR condition, the entry is left blank. “FC” = fold change.