Table 3 Proteins found to be significantly enriched in chRCC

− 0.83

P11117

Lysosomal acid phosphatase (LAP) (EC 3.1.3.2)

− 0.66

P04075

Fructose-bisphosphate aldolase A (EC 4.1.2.13) (Lung cancer antigen NY-LU-1) (Muscle-type aldolase)

− 0.81

P09972

Fructose-bisphosphate aldolase C (EC 4.1.2.13) (Brain-type aldolase)

− 0.82

P07355

Annexin A2 (Annexin II) (Annexin-2) (Calpactin I heavy chain) (Calpactin-1 heavy chain) (Chromobindin-8) (Lipocortin II) (Placental anticoagulant protein IV) (PAP-IV) (Protein I) (p36)

− 1.06

Q96BM9

ADP-ribosylation factor-like protein 8A (ADP-ribosylation factor-like protein 10B) (Novel small G protein indispensable for equal chromosome segregation 2)

− 0.73

P15289

Arylsulfatase A (ASA) (EC 3.1.6.8) (Cerebroside-sulfatase) [Cleaved into: Arylsulfatase A component B; Arylsulfatase A component C]

− 0.99

P61421

V-type proton ATPase subunit d 1 (V-ATPase subunit d 1) (32 kDa accessory protein) (V-ATPase 40 kDa accessory protein) (V-ATPase AC39 subunit) (p39) (Vacuolar proton pump subunit d 1)

− 0.56

P16070

CD44 antigen (CDw44) (Epican) (Extracellular matrix receptor III) (ECMR-III) (GP90 lymphocyte homing/adhesion receptor) (HUTCH-I) (Heparan sulfate proteoglycan) (Hermes antigen) (Hyaluronate receptor) (Phagocytic glycoprotein 1) (PGP-1) (Phagocytic glycoprotein I) (PGP-I) (CD antigen CD44)

− 1.21

P08962

CD63 antigen (Granulophysin) (Lysosomal-associated membrane protein 3) (LAMP-3) (Melanoma-associated antigen ME491) (OMA81H) (Ocular melanoma-associated antigen) (Tetraspanin-30) (Tspan-30) (CD antigen CD63)

− 0.87

P12532

Creatine kinase U-type, mitochondrial (EC 2.7.3.2) (Acidic-type mitochondrial creatine kinase) (Mia-CK) (Ubiquitous mitochondrial creatine kinase) (U-MtCK)

− 0.95

P53634

Dipeptidyl peptidase 1 (EC 3.4.14.1) (Cathepsin C) (Cathepsin J) (Dipeptidyl peptidase I) (DPP-I) (DPPI) (Dipeptidyl transferase) [Cleaved into: Dipeptidyl peptidase 1 exclusion domain chain (Dipeptidyl peptidase I exclusion domain chain); Dipeptidyl peptidase 1 heavy chain (Dipeptidyl peptidase I heavy chain); Dipeptidyl peptidase 1 light chain (Dipeptidyl peptidase I light chain)]

− 1.00

P00167

Cytochrome b5 (Microsomal cytochrome b5 type A) (MCB5)

− 1.20

O75911

Short-chain dehydrogenase/reductase 3 (EC 1.1.1.300) (DD83.1) (Retinal short-chain dehydrogenase/reductase 1) (retSDR1) (Retinol dehydrogenase 17) (Short chain dehydrogenase/reductase family 16C member 1)

− 0.64

O60884

DnaJ homolog subfamily A member 2 (Cell cycle progression restoration gene 3 protein) (Dnj3) (Dj3) (HIRA-interacting protein 4) (Renal carcinoma antigen NY-REN-14)

− 1.04

Q9UK22

F-box only protein 2

− 1.57

P04066

Tissue alpha-L-fucosidase (EC 3.2.1.51) (Alpha-L-fucosidase I) (Alpha-L-fucoside fucohydrolase 1) (Alpha-L-fucosidase 1)

− 0.88

Q96C23

Aldose 1-epimerase (EC 5.1.3.3) (Galactose mutarotase)

− 0.84

Q9P2T1

GMP reductase 2 (GMPR 2) (EC 1.7.1.7) (Guanosine 5′-monophosphate oxidoreductase 2) (Guanosine monophosphate reductase 2)

− 0.82

P63096

Guanine nucleotide-binding protein G(i) subunit alpha-1 (Adenylate cyclase-inhibiting G alpha protein)

− 1.37

P15586

N-acetylglucosamine-6-sulfatase (EC 3.1.6.14) (Glucosamine-6-sulfatase) (G6S)

− 1.00

Q9NRV9

Heme-binding protein 1 (p22HBP)

− 2.02

P16401

Histone H1.5 (Histone H1a) (Histone H1b) (Histone H1 s-3)

− 1.70

P80365

Corticosteroid 11-beta-dehydrogenase isozyme 2 (EC 1.1.1.-) (11-beta-hydroxysteroid dehydrogenase type 2) (11-DH2) (11-beta-HSD2) (11-beta-hydroxysteroid dehydrogenase type II) (11-HSD type II) (11-beta-HSD type II) (NAD-dependent 11-beta-hydroxysteroid dehydrogenase) (11-beta-HSD) (Short chain dehydrogenase/reductase family 9C member 3)

− 3.15

P08729

Keratin, type II cytoskeletal 7 (Cytokeratin-7) (CK-7) (Keratin-7) (K7) (Sarcolectin) (Type-II keratin Kb7)

− 1.64

P11279

Lysosome-associated membrane glycoprotein 1 (LAMP-1) (Lysosome-associated membrane protein 1) (CD107 antigen-like family member A) (CD antigen CD107a)

− 1.56

P13473

Lysosome-associated membrane glycoprotein 2 (LAMP-2) (Lysosome-associated membrane protein 2) (CD107 antigen-like family member B) (LGP-96) (CD antigen CD107b)

− 1.43

O00462

Beta-mannosidase (EC 3.2.1.25) (Lysosomal beta A mannosidase) (Mannanase) (Mannase)

− 0.99

Q9H8H3

Methyltransferase-like protein 7A (EC 2.1.1.-) (Protein AAM-B)

− 1.45

Q92597

Protein NDRG1 (Differentiation-related gene 1 protein) (DRG-1) (N-myc downstream-regulated gene 1 protein) (Nickel-specific induction protein Cap43) (Reducing agents and tunicamycin-responsive protein) (RTP) (Rit42)

− 1.66

Q5TFE4

5′-nucleotidase domain-containing protein 1 (EC 3.1.3.-)

− 0.91

Q92882

Osteoclast-stimulating factor 1

− 1.21

Q15124

Phosphoglucomutase-like protein 5 (Aciculin) (Phosphoglucomutase-related protein) (PGM-RP)

− 0.29

A6NDG6

Glycerol-3-phosphate phosphatase (G3PP) (EC 3.1.3.21) (Aspartate-based ubiquitous Mg(2 +)-dependent phosphatase) (AUM) (EC 3.1.3.48) (Phosphoglycolate phosphatase) (PGP)

− 1.15

Q86T03

Type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase (Type 1 PtdIns-4,5-P2 4-Ptase) (EC 3.1.3.78) (PtdIns-4,5-P2 4-Ptase I) (Transmembrane protein 55B)

− 0.95

Q8NHP8

Putative phospholipase B-like 2 (EC 3.1.1.-) (76 kDa protein) (p76) (LAMA-like protein 2) (Lamina ancestor homolog 2) (Phospholipase B domain-containing protein 2) [Cleaved into: Putative phospholipase B-like 2 32 kDa form; Putative phospholipase B-like 2 45 kDa form]

− 0.74

O15162

Phospholipid scramblase 1 (PL scramblase 1) (Ca(2 +)-dependent phospholipid scramblase 1) (Erythrocyte phospholipid scramblase) (MmTRA1b)

− 0.72

O15305

Phosphomannomutase 2 (PMM 2) (EC 5.4.2.8)

− 0.53

P35813

Protein phosphatase 1A (EC 3.1.3.16) (Protein phosphatase 2C isoform alpha) (PP2C-alpha) (Protein phosphatase IA)

− 1.20

P42785

Lysosomal Pro-X carboxypeptidase (EC 3.4.16.2) (Angiotensinase C) (Lysosomal carboxypeptidase C) (Proline carboxypeptidase) (Prolylcarboxypeptidase) (PRCP)

− 1.03

P11216

Glycogen phosphorylase, brain form (EC 2.4.1.1)

− 0.69

P61106

Ras-related protein Rab-14

− 0.68

Q9H0U4

Ras-related protein Rab-1B

− 0.58

Q9UL25

Ras-related protein Rab-21

− 0.80

P51149

Ras-related protein Rab-7a

− 1.64

P51151

Ras-related protein Rab-9A

− 0.69

P61224

Ras-related protein Rap-1b (GTP-binding protein smg p21B)

− 1.03

P61225

Ras-related protein Rap-2b

− 1.04

Q8TC12

Retinol dehydrogenase 11 (EC 1.1.1.300) (Androgen-regulated short-chain dehydrogenase/reductase 1) (HCV core-binding protein HCBP12) (Prostate short-chain dehydrogenase/reductase 1) (Retinal reductase 1) (RalR1) (Short chain dehydrogenase/reductase family 7C member 1)

− 0.69

Q14108

Lysosome membrane protein 2 (85 kDa lysosomal membrane sialoglycoprotein) (LGP85) (CD36 antigen-like 2) (Lysosome membrane protein II) (LIMP II) (Scavenger receptor class B member 2) (CD antigen CD36)

− 1.01

P01011

Alpha-1-antichymotrypsin (ACT) (Cell growth-inhibiting gene 24/25 protein) (Serpin A3) [Cleaved into: Alpha-1-antichymotrypsin His-Pro-less]

− 0.82

Q9HAT2

Sialate O-acetylesterase (EC 3.1.1.53) (H-Lse) (Sialic acid-specific 9-O-acetylesterase)

− 1.69

Q6IA17

Single Ig IL-1-related receptor (Single Ig IL-1R-related molecule) (Single immunoglobulin domain-containing IL1R-related protein) (Toll/interleukin-1 receptor 8) (TIR8)

− 0.78

Q00796

Sorbitol dehydrogenase (EC 1.1.1.14) (L-iditol 2-dehydrogenase)

− 1.60

Q13488

V-type proton ATPase 116 kDa subunit a isoform 3 (V-ATPase 116 kDa isoform a3) (Osteoclastic proton pump 116 kDa subunit) (OC-116 kDa) (OC116) (T-cell immune regulator 1) (T-cell immune response cDNA7 protein) (TIRC7) (Vacuolar proton translocating ATPase 116 kDa subunit a isoform 3)

− 0.29

Q9UGI8

Testin (TESS)

− 0.58

O76062

Delta(14)-sterol reductase (Delta-14-SR) (EC 1.3.1.70) (Another new gene 1 protein) (C-14 sterol reductase) (Putative sterol reductase SR-1) (Sterol C14-reductase) (Transmembrane 7 superfamily member 2)

− 1.92

Q9NUM4

Transmembrane protein 106B

− 0.71

Q12792

Twinfilin-1 (Protein A6) (Protein tyrosine kinase 9)

− 0.40

O15498

Synaptobrevin homolog YKT6 (EC 2.3.1.-)