Table I

Subset of tissue-associated proteins by quantitative correlation

These proteins were associated exclusively with one tissue in at least three independent experiments or in two experiments if they also displayed a high mitochondrial targeting prediction score. The organelle information is based on the Swiss-Prot and GO annotations (Acc. no., Swiss-Prot/NCBI accession code; M, known mitochondrial protein; M.pred/PSORT, mitochondrial prediction scores by means of Mitopred or PSORT II (; % ratio, averaged ratios of the partial sums as indicated; H, heart, SM, skeletal muscle, L, liver; No. id., number of experiments that validated the association with the specified tissue). Chr, chromosome.

Protein id.
    Acetyl-CoA synthetase 2, similar to XP_215897 M6.79.94
    Acyl coenzyme A thioester hydrolase Q6IMX8 M3.47.83
    ATP synthase B chain P19511 M5.23.03
    DNA segment, Chr 10, Johns Hopkins University 81 expressed XP_215368 1003.53.02
    Heart fatty acid-binding protein P07483 Non-M4.3≥10≥104
    Leucine zipper-EF-hand-containing transmembrane protein XP_223541 84.617.4≥10≥103
    NADH dehydrogenase (ubiquinone) 1α subcomplex 2, 8 kDa XP_214570 M9.57.33
    NADH-ubiquinone oxidoreductase,13-kDa B subunit Q63362 M≥107.43
    Propionyl-CoA carboxylase, β chain P07633 M4.27.23
    RIKEN cDNA 2310005E10, similar to XP_216117 84.6≥10≥102
Protein descriptionAcc. no.OrganelleM.predPSORT% ratioNo. id.
Skeletal muscle
    [Pyruvate dehydrogenase (lipoamide)]-phosphatase 1 O88483 M7.1≥103
    Chaperone activity of bc1 complex-like XP_341163 M8.63.04
    NAD+-specific isocitrate dehydrogenase, a-subunit Q99NA5 M3.5≥103
    Parvalbumin P02625 Non-M4.23.04
    Pyruvate dehydrogenase phosphatase regulatory subunit XP_226475 M5.8≥103
    Hypothetical protein (similar to TU12B1-TY) IPI00389238 Non-M≥10≥103
    Voltage-dependent anion channel 1 Q9Z2L0 M≥105.33
    Voltage-dependent anion channel 2 P81155 M9.95.13
    Voltage-dependent anion channel 3 Q9R1Z0 M6.8≥103
    Williams-Beuren syndrome critical region protein 21 XP_341105
Protein ratioNo. id.
    2310005D12Rik protein P14604 M6.16.33
    2-Amino-3-ketobutyrate coenzyme A ligase XP_345857 M≥10≥103
    Aa2-174, similar to Q7TMB6 Non-M≥10≥103
    Ba1-651 Q7TP27 M8.54.33
    Carbamoyl-phosphate synthase P07756 M≥10≥103
    D4Ertd765e hypothetical protein, similar to XP_216479 92.35.4≥102
    Farnesyl pyrophosphate synthetase (FPP synthetase) P05369 Cytosol≥106.73
    Glutamate dehydrogenase P10860 M≥105.63
    Glutaryl-CoA dehydrogenase, similar to XP_344745 M8.06.03
    Glutathione S-transferase P24473 M≥10≥103
    Hydroxymethylglutaryl-CoA synthase P22791 M≥10≥103
    Hypothetical protein FLJ30596, similar to XP_345168 Non-M≥10≥103
    Hypothetical protein XP_346610 Non-M≥10≥103
    Hypothetical protein FLJ21963, similar to XP_235174
    KIAA1630 protein, similar to XP_341558 92.3≥10≥103
Protein ratioNo. id.
    Kidney-specific protein O70490 99≥10≥102
    Kynurenine aminotransferase I Q64602 M3.13.33
    Lactamase, β2, similar to XP_216316 92.3≥10≥102
    Maleylacetoacetate isomerase P57113 M≥10≥103
    Medium-chain acyl-CoA synthetase XP_341918 M≥10≥103
    NADPH:adrenodoxin oxidoreductase P56522 M4.15.53
    NIPSNAP-related protein, similar to XP_232955 69.6≥10≥102
    Nonspecific lipid transfer protein P11915 M≥10≥103
    Ornithine aminotransferase, mitochondrial precursor P04182 M6.65.23
    Ornithine carbamoyltransferase P00481 M≥10≥103
    Putative short-chain dehydrogenase/reductase Q9WVK3 M≥10≥103
    RIKEN cDNA 0610010D20, similar to XP_215248 M≥10≥103
    Sarcosine dehydrogenase O88499 M≥10≥103
    Transthyretin (4L369), similar to XP_215112 92.3≥10≥102
    Weakly similar to multifunctional aminotransferase Q08415 Non-M7.09.93
    Weakly similar to SA, rat hypertension-associated Q7TMB6 84.6≥10≥102