Table II

Partial list of proteins identified to be down-regulated in pancreatic cancer (Panc1) versus non-neoplastic (HPDE) cells by SILAC

RefSeq accession no.Protein nameRatio (Panc1/HPDE)LocalizationSignal peptide presentProtein function
SILACDNA array
NP_001054 Transferrin0.05aTNDbExtracellular, plasma membrane, ERYesTransport
NP_002017 Fibronectin 10.05a0.012Extracellular, ERYesExtracellular matrix protein, cell growth
NP_036246 Caspase 140.05aTNPcCytoplasmNoCysteine protease, protein metabolism
NP_002643 Prolactin-induced protein (PIP)0.05aTNDExtracellularYesSecreted polypeptide
NP_004985 Matrix metalloproteinase 9 (MMP-9)/gelatinase B0.05a0.9Extracellular, plasma membraneYesMetalloprotease, protein metabolism
NP_001176 α2-Glycoprotein 10.05aTNDExtracellularYesSecreted protein, metabolism lipolysis
NP_444513 Dermcidin0.05aTNPExtracellularYesSecreted polypeptide, immune response
NP_003371 Vimentin0.05a104CytoplasmNoCytoskeletal protein, cell growth
NP_000517 Keratin 140.05a0.014CytoplasmNoCytoskeletal protein, cell growth
NP_001314 Cystatin M0.05a0.07ExtracellularYesProtease inhibitor, protein metabolism
NP_002288 Lipocalin 10.05aTNDExtracellularYesTransport
NP_057436 Carboxypeptidase A40.05a0.2ExtracellularYesMetalloprotease, protein metabolism
NP_006542 Lipophilin B0.05aTNDExtracellularYesSecreted polypeptide
NP_002990 Syndecan 40.05a0.17Plasma membraneYesCell surface receptor, signal transduction
NP_005597 Legumain0.05aTNDLysosomeYesCysteine protease, protein metabolism
NP_001903 cathepsin L0.05a0.4LysosomeYesCysteine protease, protein metabolism
NP_002954 S100 calcium-binding protein A70.05aTNDExtracellular, ERNoCalcium-binding protein, signal transduction
NP_003236 Transglutaminase 30.05aTNDCytoplasmNoAminotransferase, metabolism
NP_001544 IGFBP-70.05a0.07ExtracellularYesAdhesion molecule, signal transduction
NP_005969 S100 calcium-binding protein A20.05a0.02CytoplasmNoCalcium-binding protein, signal transduction
NP_000349 Transforming growth factor-β10.05a0.75ExtracellularYesLigand, signal transduction
NP_002566 Plasminogen activator inhibitor, type 20.05a0.01ExtracellularYesProtease inhibitor, protein metabolism
NP_003055 SLPI0.05a0.2ExtracellularYesProtease inhibitor, protein metabolism
NP_004939 Desmocollin 10.05aTNDExtracellularYesHydrolase, protein metabolism
NP_000230 Lysozyme0.05aTNDExtracellularYesHydrolase, protein metabolism
NP_002334 Lactotransferrin0.05aTNDExtracellularYesTransport/cargo
NP_115997 Myosin 18B0.05aTNPCytoplasmNoMotor protein, cell growth
NP_062564 Interleukin 1 family, member 90.05aTNDCytoplasmNoLigand, signal transduction
NP_001892 Connective tissue growth factor (CTGF)0.05a0.5Extracellular, GolgiYesExtracellular matrix protein, cell growth
NP_036529 Protease inhibitor 130.05a0.01CytoplasmNoProtease inhibitor, protein metabolism
NP_005204 Cystatin A0.05a0.006ExtracellularNoProtease inhibitor, protein metabolism
NP_003625 NIPSNAP 10.05a0.5UnknownNoUnknown
NP_000198 Proinsulin0.05aTNDExtracellularYesGrowth factor, signal transduction
NP_002955 S100 calcium-binding protein A80.05a0.08Extracellular, cytoplasm, plasma membraneNoCalcium-binding protein, signal transduction
NP_003237 Thrombospondin 10.060.13ExtracellularYesExtracellular matrix protein, cell growth
NP_076956 Chromosome 7 open reading frame 240.11740.68UnknownNoUnknown
NP_001145 Annexin 50.13711.1Extracellular, plasma membraneYesCalcium-binding protein, signal transduction
NP_065877 Synaptotagmin XIII0.1449TNDPlasma membrane, GolgiNoMembrane transport protein
NP_005130 Annexin A30.19610.28CytoplasmNoCalcium-binding protein, signal transduction
NP_001419 Enolase 10.2041.7Lysosome, plasma membraneYesHydrolase, protein metabolism
NP_000138 Fucosidase, α-l-10.21740.6Lysosome, plasma membraneYesHydrolase, protein metabolism
NP_001677 ATP synthase0.22221.1Plasma membraneNoTransport/cargo, metabolism
NP_000090 Cystatin C0.22220.15ExtracellularYesProtease inhibitor, protein metabolism
NP_002037 Glyceraldehyde-3-phosphate dehydrogenase0.24391.1CytoplasmNoDehydrogenase, metabolism
NP_003775 Megsin0.250.0032CytoplasmNoProtease inhibitor, protein metabolism
NP_005013 Profilin 10.29411.3CytoplasmNoCytoskeletal protein, cell growth
NP_006423 Epididymal secretory protein0.31250.16LysosomeNoTransport/cargo, metabolism
NP_000934 Cyclophilin C0.35710.6extracellular, ERYesChaperone, metabolism
NP_003109 SPARC0.38460.13ExtracellularYesSecreted polypeptide, signal transduction
NP_002071 Aspartate aminotransferase 20.41660.8MitochondrionYesAminotransferase, metabolism
NP_000909 Prolyl 4-hydroxylase0.43470.8Extracellular, ERYesIsomerase, metabolism
NP_002988 Syndecan 10.43470.28Plasma membraneYesReceptor, signal transduction
NP_705935 Tropomyosin 30.4347TNDCytoplasmNoCytosleletal protein. cell growth
NP_001545 Cysteine-rich, angiogenic inducer, 610.51Extracellular, plasma membraneYesExtracellular matrix protein, signal transduction
  • a An arbitrary value of 0.05 ( Embedded Image) was chosen for proteins where the intensity of the peptides in the MS spectra was either very low or absent in cancer (Panc1) compared to normal (HPDE).

  • b TND, transcript not detectable.

  • c TNP, transcript not present on chip.