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Supporting Information for Proteomics DOI 10.1002/Pmic.200300675

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Supporting Information for Proteomics DOI 10.1002/Pmic.200300675 Supporting Information for Proteomics DOI 10.1002/pmic.200300675 Gavin I. Welsh, Matthew R. Griffiths, Kenneth J. Webster, Martin J. Page and Jeremy M. Tavar A proteome analysis of adipogenesis ª 2004 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.proteomics-journal.de Table 1. Annotation of 102 features that are increased or decreased by 2-fold or more between fibroblast and adipocyte (A) Proteins that increase during differentiation MCI Protein ID Fold change Days 0 1 2 4 8 Metabolic enzymes and mitochondrial proteins Glycerophosphate dehydrogenase 37109 gi387178 1,0 24,5 26,0 23,0 62,0 Pyruvate carboxylase 36041 gi293744 1,0 34,0 28,0 22,0 60,5 Acidic calponin 36901 gi13543243 1,0 18,0 30,7 39,7 56,7 Malate dehydrogenase 37038 gi199092 1,0 33,7 36,0 27,0 48,3 Cu-Zn superoxide dismutase 37665 gi192929 1,0 1,0 1,0 22,0 38,7 Sucrose synthase (sucrose-UDP glucosyltransferase) 38291 gi135060 1,0 1,0 1,0 1,0 18,7 Methionine synthase (Mesembryanthemum crystallinum ) 36228 gi1814403 1,0 1,0 24,5 25,3 16,3 DBA/2J lactate dehydrogenase-A (LDH-A) 38219 gi538134 1,0 1,0 1,0 1,0 15,0 D-Dopachrome tautomerase 37794 gi2352907 1,0 1,4 1,0 3,8 4,6 NAD+-dependent isocitrate dehydrogenase 36917 gi1708399 1,0 1,0 1,3 2,3 4,6 CD1 phosphofructokinase 36289 gi200297 1,0 1,7 1,0 1,7 3,4 Dihydrolipoamide dehydrogenase (Dld) 36566 gi2078521 1,0 1,2 1,1 1,6 3,3 Glycerophosphate dehydrogenase 37099 gi387178 1,0 1,2 1,2 1,6 3,3 Electron transfer flavoprotein-ubiquinone oxidoreductase 36481 gi545620 1,0 1,0 1,4 1,9 3,1 Glutamine synthetase 36823 gi15419026 1,0 1,4 1,9 2,6 2,9 Long chain fatty acyl CoA synthetase 36326 gi563830 1,0 1,2 1,8 2,6 2,8 Pyruvate dehydrogenase (pdha-1) 36804 gi200276 1,0 1,0 1,9 2,5 2,6 Maleylacetoacetate isomerase 37343 gi5478315 1,0 1,2 1,1 1,8 2,6 Carbonyl reductase 37180 gi1049107 1,0 1,3 1,0 1,4 2,5 Isovaleryl-CoA dehydrogenase (IVD) 36847 gi9789984 1,0 1,3 1,3 1,1 2,4 Succinate dehydrogenase Fp subunit 36395 gi12655060 1,0 1,0 1,1 1,4 2,3 Aldehyde dehydrogenase (ALDH2) 36643 gi6753035 1,0 1,4 1,4 1,1 2,2 Methylmalonate semialdehyde dehydrogenase 36580 gi12006964 1,0 2,1 1,5 2,1 2,2 Phosphoenolpyruvate carboxykinase (GTP) 36411 gi4102182 1,0 1,0 1,3 1,2 2,1 Putative lysophosphatidic acid acyltransferase 36662 gi2317724 1,0 1,0 1,5 1,7 2,0 ATP synthase a-subunit 36639 gi192089 1,0 1,3 1,2 1,9 2,0 Cytosolic malate dehydrogenase 37047 gi199094 1,0 1,4 1,5 2,5 1,9 Pyruvate dehydrogenase E1-b-subunit 37033 g1352624 1,0 1,1 2,0 2,0 1,5 Signalling proteins RHOGDP dissociation inhibitor 1 (RHO GDI1) 37318 gi121107 1,0 1,0 1,0 21,5 29,0 EH domain-containing protein (EHD1) 36438 gi7106302 1,0 1,0 18,0 16,0 19,0 Adipocyte complement-related protein (ACRP30) 37175 gi1051268 1,0 1,6 1,3 1,8 3,0 EH domain-containing protein (EHD1) 36439 gi7106302 1,0 1,3 1,8 1,7 1,9 Cytoskeletal proteins Significant homology to coactosin (Dictyostelium discoideum ) 37743 gi19482159 1,0 1,0 1,0 11,0 31,5 Others Keratinocyte lipid binding protein 37739 gi3800751 1,0 1,0 1,0 47,3 90,3 Calpactin I heavy chain 39164 gi192353 1,0 1,0 1,0 1,0 30,5 ERO1L 36510 gi6642924 1,0 1,0 1,0 18,0 32,0 Acidic ribosomal phosophoprotein PO 36975 gi27923993 1,0 30,7 39,5 32,0 21,3 Keratinocyte lipid-binding protein 37737 gi3800751 1,0 -1,8 1,1 1,0 5,2 Keratinocyte lipid-binding protein 37730 gi3800751 1,0 1,1 1,5 5,1 3,9 Albumin 36421 gi162648 1,0 1,2 1,1 1,5 2,6 Heat shock protein 86 36187 gi194030 1,0 1,4 1,2 2,5 2,6 Threonyl-tRNA synthase, (threonine-tRNA ligase) (THRRS) 36261 gi26346898 1,0 1,3 1,3 2,2 2,1 (B) Proteins that decrease during differentiation Fold Change Days 0 1 2 4 8 Metabolic enzymes and mitochondrial proteins NAD+-dependent isocitrate dehydrogenase 38164 gi1708399 1,0 1,3 -1,4 -2,7 -46,6 Pyruvate dehydrogenase E1-b-subunit 37006 gi1352624 1,0 -1,2 -1,7 -1,7 -5,7 NAD(H)-specific isocitrate dehydrogenase a-subunit precursor 36899 gi706838 1,0 1,4 2,0 2,8 5,7 Mitochondrial long-chain enoyl-Coa hydratase 38416 gi26084523 1,0 1,0 -1,3 -1,6 -3,7 DBA/2J lactate dehydrogenase-A (LDH-A) 37084 gi538134 1,0 -1,9 -2,9 -2,4 -3,4 ATP synthase b-subunit (beta-F1 ATPase) 36542 gi2623221 1,0 1,4 1,4 -1,9 -2,9 NADH:ubiquinone reductase precursor 36281 gi5138998 1,0 -2,0 -1,4 -2,4 -2,7 Cytochrome b5 37643 gi28492182 1,0 -1,1 -2,3 -1,6 -2,7 A10 36553 gi26345685 1,0 -1,1 1,0 1,0 -2,6 Dihydrolipoamide succinyltransferase 36634 gi736676 1,0 1,6 1,3 -2,4 -2,2 N -Acetylglucosamine kinase splice variant 36947 gi13435629 1,0 -1,2 -1,2 -1,4 -2,2 Signalling proteins RHO GDP-dissociation inhibitor 2 (RHO GDI2) 37317 gi1707893 1,0 1,0 -1,4 -1,9 -3,2 CRMP-2 36447 gi3122051 1,0 -1,3 -1,6 -2,6 -3,1 Rap1B 37412 gi595279 1,0 -1,3 -1,2 -2,3 -3,1 Protein phosphatase type 1 (dis2m2) 36957 gi471977 1,0 -1,3 -1,3 1,1 -2,2 EH domain-containing protein EHD1 39072 gi7106302 1,0 -1,2 -17,0 -17,0 -1,9 EH domain-containing protein EHD1 36504 gi7106302 1,0 -1,8 -3,0 -1,8 -1,4 Cytoskeletal proteins Cytoskeletal g-actin 36597 gi191656 1,0 -2,2 -1,9 -2,5 -6,9 Cytoskeletal g-actin 36785 gi191656 1,0 -1,9 1,1 -2,7 -4,7 Lamin C 36473 gi52864 1,0 -1,3 -1,5 -3,0 -3,8 Vimentin 36543 gi1202369 1,0 -1,2 -1,1 -2,0 -4,5 Nonmuscle tropomyosin 5 37123 gi54911 1,0 1,0 -1,2 -2,3 -3,4 Lipocortin I 36978 gi6754569 1,0 -1,4 -1,6 -2,8 -3,2 Cytoskeletal g-actin 36775 gi191656 1,0 -1,4 -1,5 -2,1 -2,8 Vimentin 36557 gi202369 1,0 -1,2 -1,1 -1,5 -2,8 Cofilin 37591 gi220383 1,0 -1,1 -1,2 -2,1 -2,6 Lipocortin I 36980 gi6754569 1,0 -1,1 -1,2 -2,0 -2,6 b-Tubulin (clone B3T) 36420 gi55047 1,0 -1,1 -1,4 -1,2 -2,2 a-Tubulin 36595 gi202218 1,0 1,0 -1,2 -1,4 -2,2 Vimentin 38430 gi202369 1,0 -1,7 -2,1 -1,7 -2,2 b-tubulin (clone B3T) 36606 gi55047 1,0 1,0 1,0 -1,7 -2,2 Cytoskeletal gamma-actin 36684 gi191656 1,0 1,0 -1,3 -2,1 -2,0 Others Sid470p 37376 gi1226242 1,0 1,3 1,5 2,0 -34,3 SNC73 36451 gi3201899 1,0 1,0 1,0 -1,4 -30,0 a-2-Macroglobulin 37413 gi77870 1,0 -1,8 -1,9 -2,7 -7,0 NEDD5 36802 gi5419167 1,0 -1,2 -1,3 -4,0 -6,1 Hemiferrin 40239 gi204584 1,0 -1,6 -1,6 -2,2 -4,5 Annexin III 38574 gi2437839 1,0 -1,4 -1,4 -1,9 -4,1 B-cell receptor associated protein (BAP) 32 37171 gi130020 1,0 -1,7 -1,9 -1,8 -4,1 Translation initiation factor 4E (eIF-4E) 37320 gi6681292 1,0 1,0 -1,3 -1,2 -3,9 Mitochondrial stress-70 protein (PBP74) 36359 gi407340 1,0 1,1 1,3 -2,0 -3,6 Serum albumin (complex with myristic and tri-iodobenzoic acid) 38511 gi20330098 1,0 1,8 1,6 -1,5 -3,2 Albumin 36375 gi162648 1,0 1,7 2,0 1,0 -2,9 84 kD a heat shock protein 36119 gi6754253 1,0 -1,6 -1,5 -1,7 -2,9 a-2-Macroglobulin precursor 38246 gi177870 1,0 -1,5 -1,6 -1,6 -2,7 Proapo-A-I protein 40275 gi178777 1,0 1,1 -1,4 -1,6 -2,6 Keratinocyte lipid binding protein 37748 gi3800751 1,0 1,0 -1,2 -1,5 -2,6 3T3-L1 lipid binding protein 37973 gi198716 1,0 1,0 -1,2 -3,4 -2,5 Heat shock protein 70 36341 gi20899563 1,0 -1,3 -1,4 -1,3 -2,5 Serum albumin (complex with myristic and tri-iodobenzoic acid) 36363 gi20330098 1,0 2,0 1,7 1,0 -2,5 c29 36601 gi124899 1,0 1,6 -1,4 -1,5 -2,3 Serum albumin 36285 gi20899563 1,0 -2,0 -1,6 -1,8 -2,1 hnRNP K homologue 36461 gi436893 1,0 -1,1 -1,1 -1,3 -2,1 Serine protease inhibitor (SPI3) 36811 gi818902 1,0 1,2 -1,1 -1,5 -2,1 C3d: A C3 fragment and ligand for complement receptor 2 36929 gi3745750 1,0 -1,1 -1,7 -1,5 -2,1 Heat shock protein 70 36295 gi20899563 1,0 1,5 1,4 1,3 2,0 Voltage-dependent anion channel (RVDAC1) 37347 gi4105604 1,0 -1,1 -1,3 -1,6 -2,0 14-3-3 Protein g 37074 gi2852385 1,0 1,3 1,7 1,2 -2,0 Phosphatidylethanolamine binding protein 37434 gi9256571 1,0 1,9 1,0 -1,4 -2,0 L14 lectin 37769 gi395927 1,0 1,2 -1,2 -1,8 -2,0.
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