Supporting Information for Proteomics DOI 10.1002/pmic.200400896 Odette Prat, Frdric Berenguer, Vronique Malard, Emmanuelle Tavan, Nicole Sage, Grard Steinmetz and Eric Quemeneur Transcriptomic and proteomic responses of human renal HEK293 cells to uranium toxicity ª 2004 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.proteomics-journal.de Table 1 : Differentially expressed genes in HEK293 cells treated with uranium at CI50 , CI30 and CI20. GENE ID GENE DESCRIPTION CI50 CI30 CI20 AANAT arylalkylamine N-acetyltransferase 1.66 AASDHPPT aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase -1.73 ABCC8 ATP-binding cassette, sub-family C (CFTR/MRP), member 8 2.96 2.9 ABCF2 ATP-binding cassette, sub-family F (GCN20), member 2 1.86 ACAT2 acetyl-Coenzyme A acetyltransferase 2 (acetoacetyl Coenzyme A thiolase) -2.47 ACTB actin, beta -2.12 ACTR2 ARP2 actin-related protein 2 homolog (yeast) -1.94 ADAR adenosine deaminase, RNA-specific 1.87 1.92 ADNP activity-dependent neuroprotector -1.03 ADPRTL1 ADP-ribosyltransferase (NAD+; poly (ADP-ribose) polymerase)-like 1 1.48 2.31 2.1 AKAP1 A kinase (PRKA) anchor protein 1 1.59 AKR1C3 aldo-keto reductase family 1, member C3 -1.37 (3-alpha hydroxysteroid dehydrogenase, type II) ALS2CR3 amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 3 -1.21 APBB1 amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65) 4.41 APC adenomatosis polyposis coli -1.66 APP amyloid beta (A4) precursor protein (protease nexin-II, Alzheimer disease) -1.32 APPBP1 amyloid beta precursor protein binding protein 1, 59kDa -1.55 APPL adaptor protein containing pH domain, PTB domain and leucine zipper motif 1.44 ARHA ras homolog gene family, member A -1.64 ATP6V1A1 ATPase, H+ transporting, lysosomal 70kDa, V1 subunit A, isoform 1 1.97 ATP9B ATPase, Class II, type 9B 2.56 1.41 B2M beta-2-microglobulin 1.57 -2.55 BA108L7.2 similar to rat tricarboxylate carrier-like protein 2.27 BAALC brain and acute leukemia, cytoplasmic -1.39 BACE beta-site APP-cleaving enzyme -1.29 BBP beta-amyloid binding protein precursor 1.77 1.73 BGN biglycan 1.68 1.88 BIRC1 baculoviral IAP repeat-containing 1 2.36 2.13 BTF3 basic transcription factor 3 -2.39 C15orf15 chromosome 15 open reading frame 15 -1.73 C20orf12 chromosome 20 open reading frame 12 2.6 2.52 2.14 C20orf155 chromosome 20 open reading frame 155 1.79 C20orf30 chromosome 20 open reading frame 30 2.11 C2orf9 chromosome 2 open reading frame 9 1.86 1.82 1.9 CALM2 calmodulin 2 (phosphorylase kinase, delta) -2.83 Table 1 (continued) CAMK2D calcium/calmodulin-dependent protein kinase (CaM kinase) II delta 1.13 CANX calnexin -2.18 CBARA1 calcium binding atopy-related autoantigen 1 3.55 CBFA2T2 core-binding factor, runt domain, alpha subunit 2 ; translocated to, 2 1.88 1.77 CGB chorionic gonadotropin, beta polypeptide 2.18 CLSTN3 calsyntenin 3 -1.47 CNIL cornichon-like -2.11 COG7 component of oligomeric golgi complex 7 1.7 COP9 COP9 homolog -1.68 COPS3 COP9 constitutive photomorphogenic homolog subunit 3 (Arabidopsis) -1.39 CRMP5 collapsin response mediator protein-5 ; CRMP3-associated molecule 2.04 1.94 1.96 CRYBB2 core-binding factor, runt domain, alpha subunit 2 ; translocated to, 2 1.47 CTCF CCCTC-binding factor (zinc finger protein) -2.39 CTRL chymotrypsin-like 3.3 CUL2 cullin 2 1.32 D1S155E NRAS-related gene -2.11 dA141H5.1 Likely ortholog of mouse neuralin 1 (NRLN1) 1.53 1.39 1.59 DDEF2 development and differentiation enhancing factor 2 -1.25 DGKA diacylglycerol kinase, alpha 80kDa 1.95 DKFZp434N0650 hypothetical protein DKFZp434N0650 -2 -1.61 DKFZP564A2416 DKFZP564A2416 protein -1.18 DKFZp761N1114 hypothetical protein DKFZp761N1114 2.49 2.91 DNAJA2 DnaJ (Hsp40) homolog, subfamily A, member 2 -1.47 DNAJC9 DnaJ (Hsp40) homolog, subfamily C, member 9 2 DSCR2 Down syndrome critical region gene 2 -1.35 DTNA dystrobrevin, alpha 1.22 2.04 2.03 DTYMK deoxythymidylate kinase (thymidylate kinase) 1.58 1.98 E46L like mouse brain protein E46 -2.11 EEF1A1 eukaryotic translation elongation factor 1 alpha 1 -1.58 EEF1G eukaryotic translation elongation factor 1 gamma -2.83 -1.76 EPS15 epidermal growth factor receptor pathway substrate 15 -1.21 ERAP140 endoplasmic reticulum associated protein 140 kDa 2.42 ERBB3 v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian) 1.63 EVI5 ecotropic viral integration site 5 2.36 FAM3C family with sequence similarity 3, member C -1.29 FBXL3A F-box and leucine-rich repeat protein 3A -1.73 FLJ10326 hypothetical protein FLJ10326 -1.15 Table 1 (continued) FLJ10803 hypothetical protein FLJ10803 3.29 FLJ10849 hypothetical protein FLJ10849 1.74 FLJ11040 hypothetical protein FLJ11040 -1.55 FLJ12270 hypothetical protein FLJ12270 1.57 FLJ12448 hypothetical protein FLJ12448 2.15 FLJ12565 hypothetical protein FLJ12565 -2.47 FLJ12584 hypothetical protein FLJ12584 1.7 1.94 2.05 FLJ12666 hypothetical protein FLJ12666 2.32 2.25 1.99 FLJ12747/KIAA1133 hypothetical protein FLJ12747/novel C3HC4 type Zinc finger (ring finger) 1.89 FLJ12888 hypothetical protein FLJ12888 1.13 FLJ13110 hypothetical protein FLJ13110 -1.11 FLJ20783 hypothetical protein FLJ20783 2.36 FLJ20886/GRB2 hypothetical protein FLJ20886/growth factor receptor-bound protein 2 1.52 FLJ30594 hypothetical protein FLJ30594 2.06 FLJ30596 hypothetical protein FLJ30596 2.51 1.99 2.62 FLJ31657 hypothetical protein FLJ31657 -1.43 FUT8 fucosyltransferase 8 (alpha (1,6) fucosyltransferase) -1.51 G3BP Ras-GTPase-activating protein SH3-domain-binding protein -1.08 GLO1 glyoxalase I -1.34 GLUL glutamate-ammonia ligase (glutamine synthase) -2 GPX1 glutathione peroxidase 1 2.21 GSPT1 G1 to S phase transition 1 2.67 1.85 1.66 GTF2H2 general transcription factor IIH, polypeptide 2, 44kDa 2.16 HADHSC L-3-hydroxyacyl-Coenzyme A dehydrogenase, short chain 2.26 HBP1 HMG-box containing protein 1 2.9 2.53 HCS cytochrome c -1.51 HLA-E major histocompatibility complex, class I, E 1.33 HMGB1 high-mobility group box 1 -1.78 HMP19 HMP19 protein 1.22 1.48 HNRPC heterogeneous nuclear ribonucleoprotein C (C1/C2) -1.51 -1.64 HSPC228 hypothetical protein HSPC228 -1.15 HSPCB heat shock 90kDa protein 1, beta -2 ID2 inhibitor of DNA binding 2, dominant negative helix-loop-helix protein -2.06 -1.88 IFRD2 interferon-related developmental regulator 2 1.13 IK IK cytokine, down-regulator of HLA II -1.35 INSIG1 insulin induced gene 1 -1.55 IQGAP2 IQ motif containing GTPase activating protein 2 2.07 Table 1 (continued) KATII L-kynurenine/alpha-aminoadipate aminotransferase -2.32 KIAA0171 Enthoprotin protein -1.28 KIAA0275 KIAA0275 protein -1.64 KIAA0453 KIAA0453 protein -2.55 KIAA0472 KIAA0472 protein 1.86 KIAA0532 KIAA0532 protein 1.62 KIAA0594 KIAA0594 protein 3.04 3.09 KIAA0876 KIAA0876 protein 3.26 2.03 1.73 KIAA0923 KIAA0923 protein -1.58 KIAA1026 KIAA1026 protein 1.64 KIAA1086 KIAA1086 protein 1.39 KIAA1143 KIAA1143 protein 3.05 2.42 1.82 KIAA1155 KIAA1155 protein 1.6 KIAA1354 KIAA1354 protein 1.28 KIAA1467 KIAA1467 protein 2.43 2.07 KIAA1724 KIAA1724 protein 2.05 1.51 KIAA1735 KIAA1735 protein 1.83 KIAA1841 KIAA1841 protein 2.49 2.18 KIAA1948 KIAA1948 protein 1.58 KIF1B kinesin family member 1B 1.94 2.33 2.24 KIF3B kinesin family member 3B 1.63 KIF3C kinesin family member 3C -2.64 KPNA3 karyopherin alpha 3 (importin alpha 4) -1.58 KPNB2 karyopherin (importin) beta 2 2.23 1.66 LAD1 ladinin 1 1.19 LAMP2 lysosomal-associated membrane protein 2 2.83 LDHA lactate dehydrogenase A -2.94 LOC121512/KIAA1615 KIAA1615 protein 2.24 LOC123016 hypothetical protein BC001563 2.14 1.97 LOC51030 CGI-148 protein -1.83 LOC56990 non-kinase Cdc42 effector protein SPEC2 3.21 LOC57038 similar to arginyl-tRNA synthetase 2.45 LOC57146 hypothetical protein from clone 24796 1.51 1.84 LPIN1 lipin 1 1.13 M6PR mannose-6-phosphate receptor (cation dependent) -1.28 MARCKS myristoylated alanine-rich protein kinase C substrate -2.18 MAT2B methionine adenosyltransferase II, beta -1.47 Table 1 (continued) MDH2 malate dehydrogenase 2, NAD (mitochondrial) -1.23 METAP2 methionyl aminopeptidase 2 -1.88 MGC10485 hypothetical protein MGC10485 1.34 MGC10924 similar to arginyl-tRNA synthetase -1.47 MGC11316/KIAA1821 rab11-family interacting protein 4(RAB11-FIP4) 1.78 MGC21675 hypothetical protein MGC21675 1.21 2.24 2.09 MGC34032 hypothetical protein MGC34032 2.25 2.02 MGC4707 hypothetical protein MGC4707 1.9 MGC4840 LONP peroxisomal Lon protease 2.82 2.16 2.2 MLLT10 myeloid/lymphoid or mixed-lineage leukemia 1.64 (trithorax homolog, Drosophila) ; translocated to, 10 MSH2 mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) -1.68 My015 My015 3.14 2.26 2.01 NAP1L1 nucleosome assembly protein 1-like 1 -1.94 NARS asparaginyl-tRNA synthetase -2.32 NDRG2 NDRG family member 2 1.34 NDRG4 NDRG family member 4 2.35 1.49 2.09 NEFL neurofilament, light polypeptide 68kDa -1.43 NEIL2 nei like 2 (E. coli) 1.47 NICE-3 NICE-3 protein -1.78 NOTCH2 Notch homolog 2 (Drosophila) -1.83 NPEPL1 aminopeptidase-like 1 1.93 1.65 NRF1 nuclear respiratory factor 1 2.06 NT5E 5’-nucleotidase, ecto (CD73) -1.94 OAT ornithine aminotransferase (gyrate atrophy) -2 P23 P23 protein -1.35 PAI-RBP1 PAI-1 mRNA-binding protein -1.78 PBEF P23 protein -2 PBX3 pre-B-cell leukemia transcription factor 3 2.56 PCCX2 protein containing CXXC domain 2 1.74 PDCD6IP programmed cell death 6 interacting protein -1.28 PDCD7 programmed cell death 7 2.45 1.95 PDE1A phosphodiesterase 1A, calmodulin-dependent 1.62 PFKFB4 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 1.31 PGD phosphogluconate dehydrogenase -1.78 PI4KII phosphatidylinositol 4-kinase type II 1.61 PIK3R1 phosphoinositide-3-kinase,