Supporting Information for Proteomics DOI 10.1002/pmic.200600026

Jun Hu, Jin Qian, Oleg Borisov, Sanqiang Pan, Yan Li, Tong Liu, Longwen Deng, Kenneth Wannemacher, Michael Kurnellas, Christa Patterson, Stella Elkabes and Hong Li

Optimized proteomic analysis of a mouse model of cerebellar dysfunction using amine-specific isobaric tags

ยช 2006 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.proteomics-journal.com Optimized Proteomic Analysis of a Mouse Model of Cerebellar

Dysfunction Using Amine-Specific Isobaric Tags

Jun Hu1, Jin Qian1, Oleg Borisov1, Sanqiang Pan2, Yan Li1, Tong Liu1, Longwen

Deng1, Kenneth Wannemacher1, Michael Kurnellas3,4, Christa Patterson3,4, Stella

Elkabes3,4* and Hong Li1*

1Center for Advanced Proteomics Research and Department of Biochemistry and

Molecular Biology, 3Department of Neurology and Neuroscience, New Jersey

Medical School, University of Medicine and Dentistry of New Jersey, Newark, NJ

07103, USA; 2Department of Anatomy, Medical School of Jinan University,

Guangzhou, Guangdong 510632, P.R. China, 4Neurology Service, Veterans Affairs,

East Orange, NJ 07018, USA

RUNNING TITLE: Proteomic study of cerebellar dysfunction

*CORRESPONDING AUTHORS: These authors contributed equally to the work presented.

Email: [email protected] and [email protected]

KEYWORDS: cerebellum, iTRAQ, LC-MS/MS, neuronal dysfunction

.

1 Supplementary Tables`

SP Table 1: The identified in mouse cerebellum.

SwissProt Accession Name pI MW GRAVY Q9JK42 [Pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial 6.6 46068 -0.26 Q64433 10 kDa heat shock protein, mitochondrial (Hsp10) (10 kDa chaperonin) 8.9 10831 -0.06 Q8R0Y6 10-formyltetrahydrofolate dehydrogenase (EC 1.5.1.6) (10-FTHFDH) 5.7 98708 -0.11 Q9CQV8 14-3-3 protein beta/alpha (Protein kinase C inhibitor protein-1) (KCIP-1) 4.5 27955 -0.7 P62259 14-3-3 protein epsilon (14-3-3E) 4.4 29173 -0.54 P68510 14-3-3 protein eta 4.5 28080 -0.62 P61982 14-3-3 protein gamma 4.5 28171 -0.69 P68254 14-3-3 protein tau (14-3-3 protein theta) 4.4 27778 -0.51 P63101 14-3-3 protein zeta/delta (Protein kinase C inhibitor protein-1) (KCIP-1) 4.4 27771 -0.63 Q9Z1B3 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta 1 5.7 138324 -0.67 P16330 2',3'-cyclic-nucleotide 3'-phosphodiesterase (EC 3.1.4.37) (CNP) (CNPase) 9.4 47123 -0.42 P46471 26S protease regulatory subunit 7 (MSS1 protein) 5.7 48516 -0.42 P62196 26S protease regulatory subunit 8 (Proteasome subunit p45) (p45/SUG) 7.7 45625 -0.32 P62334 26S protease regulatory subunit S10B (Proteasome subunit p42) 7.6 44172 -0.44 Q8BG32 26S proteasome non-ATPase regulatory subunit 11 (26S proteasome) 6.4 47305 -0.18 Q9WVJ2 26S proteasome non-ATPase regulatory subunit 13 (26S proteasome) 5.5 42809 -0.14 Q99JI4 26S proteasome non-ATPase regulatory subunit 6 (26S proteasome) 5.2 45536 -0.35 Q60597 2-oxoglutarate dehydrogenase E1 component, mitochondrial precursor 7 116117 -0.34 Q9Z0S1 3'(2'),5'-bisphosphate nucleotidase 1 (EC 3.1.3.7) 5.6 33195 -0.03 P42125 3,2-trans-enoyl-CoA , mitochondrial precursor (EC 5.3.3.8) 8.9 32078 -0.12 O08756 3-hydroxyacyl-CoA dehydrogenase type II (EC 1.1.1.35) (Type II HADH) 8.7 27418 0.14 Q99J99 3-mercaptopyruvate sulfurtransferase (EC 2.8.1.2) (MST) 6.6 32891 -0.39 Q9CR16 40 kDa peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) (PPIase) (Rotamase) 7.5 40611 -0.44 P63325 40S ribosomal protein S10 10.7 18915 -0.89 P63323 40S ribosomal protein S12 7.3 14393 -0.19 P62301 40S ribosomal protein S13 11.2 17091 -0.47 P62264 40S ribosomal protein S14 10.8 16141 -0.52 P62270 40S ribosomal protein S18 (Ke-3) (Ke3) 11.6 17718 -0.71 Q9CZX8 40S ribosomal protein S19 11.1 15954 -0.67 P60867 40S ribosomal protein S20 10.7 13372 -0.4 P62852 40S ribosomal protein S25 10.9 13742 -0.86 P97351 40S ribosomal protein S3a 10.4 29753 -0.62 P62702 40S ribosomal protein S4, X isoform 10.9 29466 -0.34 P62754 40S ribosomal protein S6 (Phosphoprotein NP33) 11.5 28680 -0.95 P62242 40S ribosomal protein S8 11 24073 -1.03 Q6ZWN5 40S ribosomal protein S9 11.3 22460 -0.66 P14206 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) 4.5 32587 -0.28 P61922 4-aminobutyrate aminotransferase, mitochondrial precursor (EC 2.6.1.19) 8.2 56451 -0.27 P10852 4F2 cell-surface antigen heavy chain (4F2hc) 5.7 58336 -0.21 Q9JM14 5'(3')-deoxyribonucleotidase, cytosolic type (EC 3.1.3.-) 5.2 23076 -0.35 Q8K010 5-oxoprolinase (EC 3.5.2.9) (5-oxo-L-prolinase) (Pyroglutamase) (5-OPase) 6.2 137610 -0.07 P63038 60 kDa heat shock protein, mitochondrial precursor (Hsp60) 6 60955 -0.08 P14869 60S acidic ribosomal protein P0 (L10E) 6.2 34216 0.02 P99027 60S acidic ribosomal protein P2 4.1 11650 -0.24 Q6ZWV3 60S ribosomal protein L10 (QM protein homolog) 10.7 24472 -0.56 P35979 60S ribosomal protein L12 10.1 17804 -0.35 P19253 60S ribosomal protein L13a (Transplantation antigen P198) 11.6 23332 -0.46 P62717 60S ribosomal protein L18a 11.3 20732 -0.66 P61255 60S ribosomal protein L26 11.2 17258 -1.11 P14115 60S ribosomal protein L27a (L29) 11.7 16458 -0.7 P47915 60S ribosomal protein L29 12.4 17455 -1.02

2 P62900 60S ribosomal protein L31 11.2 14462 -0.81 P47962 60S ribosomal protein L5 10.3 34269 -0.76 P47911 60S ribosomal protein L6 (TAX-responsive enhancer element binding protein) 11.5 32611 -0.74 P12970 60S ribosomal protein L7a (Surfeit locus protein 3) 11.3 29845 -0.55 P12382 6-phosphofructokinase, type (EC 2.7.1.11) (Phosphofructokinase 1) 7.1 85169 -0.08 P47857 6-phosphofructokinase, muscle type (EC 2.7.1.11) (Phosphofructokinase 1) 8.1 85137 -0.17 Q9WUA3 6-phosphofructokinase, type C (EC 2.7.1.11) (Phosphofructokinase 1) 7.1 85454 -0.11 Q9CQ60 6-phosphogluconolactonase (EC 3.1.1.31) (6PGL) 5.6 27254 0.15 P20029 78 kDa -regulated protein precursor (GRP 78) 4.8 72421 -0.48 Q8QZT1 Acetyl-CoA acetyltransferase, mitochondrial precursor (EC 2.3.1.9) 8.7 44815 0.08 O35381 Acidic leucine-rich nuclear phosphoprotein 32 family member A 3.7 28537 -1.21 P97822 Acidic leucine-rich nuclear phosphoprotein 32 family member E 3.5 29622 -1.11 Q99KI0 Aconitate hydratase, mitochondrial precursor (EC 4.2.1.3) 8 85463 -0.34 P68134 Actin, alpha skeletal muscle (Alpha-actin 1) 5.1 42050 -0.23 P63260 Actin, cytoplasmic 2 (Gamma-actin) 5.2 41792 -0.2 Q8K4G5 Actin-binding LIM protein 1 (Actin-binding LIM member 1) 8.7 96804 -0.72 Q8BL65 Actin-binding LIM protein 2 (Actin-binding LIM protein family member 2) 8.1 68106 -0.61 P61161 Actin-like protein 2 (Actin-related protein 2) 6.7 44760 -0.18 Q99JY9 Actin-like protein 3 (Actin-related protein 3) 5.7 47357 -0.27 Q9R0Q6 Actin-related protein 2/3 complex subunit 1A (SOP2-like protein) (Sid 329) 8.3 41626 -0.32 P11031 Activated RNA polymerase II transcriptional coactivator p15 precursor 10.3 14296 -1.07 Q8BK64 Activator of 90 kDa heat shock protein ATPase homolog 1 (AHA1) 5.2 38117 -0.51 Q9CR21 Acyl carrier protein, mitochondrial precursor (ACP) 4.8 17370 0.02 P51174 Acyl-CoA dehydrogenase, long-chain specific, mitochondrial precursor 8.5 47907 -0.26 P45952 Acyl-CoA dehydrogenase, medium-chain specific, mitochondrial precursor 8.5 46481 -0.3 P50544 Acyl-CoA dehydrogenase, very-long-chain specific, mitochondrial precursor 9.1 70875 -0.08 P31786 Acyl-CoA-binding protein (ACBP) (Diazepam binding inhibitor) (DBI) 9.4 9869 -0.93 P56375 Acylphosphatase, muscle type isozyme (EC 3.6.1.7) 9 10895 -0.54 P56376 Acylphosphatase, organ-common type isozyme (EC 3.6.1.7) 9.6 11109 -0.53 O35643 Adapter-related protein complex 1 beta 1 subunit (Beta-adaptin 1) 4.8 103978 -0.04 P17426 Adapter-related protein complex 2 alpha 1 subunit (Alpha-adaptin A) 7 107663 -0.07 P17427 Adapter-related protein complex 2 alpha 2 subunit (Alpha-adaptin C) 6.9 104100 -0.09 Q9DBG3 Adapter-related protein complex 2 beta 1 subunit (Beta-adaptin) 5 104582 -0.1 Q9JME5 Adapter-related protein complex 3 beta 2 subunit (Beta3B-adaptin) 5.3 119192 -0.36 Q9R0Y5 Adenylate kinase isoenzyme 1 (EC 2.7.4.3) (ATP-AMP transphosphorylase) 5.5 21539 -0.45 Q9WUR9 Adenylate kinase isoenzyme 4, mitochondrial (EC 2.7.4.3) 7.7 25061 -0.32 P28650 Adenylosuccinate synthetase isozyme 1 (EC 6.3.4.4) 8.6 50254 -0.27 P46664 Adenylosuccinate synthetase, non-muscle isozyme (EC 6.3.4.4) 6.5 50150 -0.23 P40124 Adenylyl cyclase-associated protein 1 (CAP 1) 7.6 51443 -0.36 Q9CYT6 Adenylyl cyclase-associated protein 2 (CAP 2) 6.4 52861 -0.46 P51881 ADP,ATP carrier protein 2 (ADP/ATP 2) 10.2 32800 0.01 P48962 ADP,ATP carrier protein, heart/skeletal muscle isoform T1 10.2 32772 0.05 Q8BSL7 ADP-ribosylation factor 2 6.5 20745 -0.3 P84084 ADP-ribosylation factor 5 6.8 20398 -0.22 P62331 ADP-ribosylation factor 6 9.3 19950 -0.38 Q8BGQ7 Alanyl-tRNA synthetase (EC 6.1.1.7) (Alanine--tRNA ) (AlaRS) 5.3 106908 -0.33 Q9JII6 Alcohol dehydrogenase [NADP+] (EC 1.1.1.2) (Aldehyde reductase) 7.4 36455 -0.33 P28474 Alcohol dehydrogenase class III (EC 1.1.1.1) (Alcohol dehydrogenase 2) 7.5 39501 0.11 Q9DBF1 Aldehyde dehydrogenase family 7 member A1 (EC 1.2.1.3) (Antiquitin 1) 6.4 55513 -0.05 P47738 Aldehyde dehydrogenase, mitochondrial precursor (EC 1.2.1.3) 7.7 56537 -0.13 P45376 Aldose reductase (EC 1.1.1.21) (AR) (Aldehyde reductase) 7.2 35600 -0.26 Q9QYC0 Alpha adducin (Erythrocyte adducin alpha subunit) 5.7 80646 -0.67 P17182 Alpha enolase (EC 4.2.1.11) (2-phospho-D-glycerate hydro-) 6.8 47009 -0.21 Q61301 Alpha-2 catenin (Alpha-catenin related protein) (Alpha N-catenin) 5.6 105297 -0.36 Q7TPR4 Alpha-actinin 1 (Alpha-actinin cytoskeletal isoform) 5 103068 -0.6 P57780 Alpha-actinin 4 (Non-muscle alpha-actinin 4) (F-actin cross linking protein) 5.1 104976 -0.65 P61164 Alpha-centractin (Centractin) (Centrosome-associated actin homolog) 6.6 42613 -0.28 P60840 Alpha-endosulfine 7.5 13334 -1.21 P46660 Alpha-internexin (Alpha-Inx) (66 kDa neurofilament protein) 4.9 55869 -0.67 Q9DB05 Alpha-soluble NSF attachment protein (SNAP-alpha) 5.1 33189 -0.36 O55042 Alpha-synuclein (Non-A beta component of AD amyloid) 4.4 14485 -0.41 Q64133 Amine oxidase [flavin-containing] A (EC 1.4.3.4) (Monoamine oxidase) 7.9 59587 -0.22

3 Q8BW75 Amine oxidase [flavin-containing] B (EC 1.4.3.4) (Monoamine oxidase) 8.4 58412 -0.2 Q8VCT3 Aminopeptidase B (EC 3.4.11.6) (Ap-B) (Arginyl aminopeptidase) 5 72343 -0.23 Q7TQF7 Amphiphysin 4.3 75012 -0.64 P12023 Amyloid beta A4 protein precursor (APP) (ABPP) 4.4 86721 -0.56 Q8VBW6 Amyloid protein-binding protein 1 5.2 60273 -0.32 Q02357 Ankyrin 1 (Erythrocyte ankyrin) 6.5 204242 -0.38 P48036 Annexin A5 (Annexin V) (Lipocortin V) (Endonexin II) (Calphobindin I) (CBP-I) 4.6 35752 -0.33 P14824 Annexin A6 (Annexin VI) (Lipocortin VI) (P68) (P70) (Protein III) 5.2 75754 -0.44 P08226 Apolipoprotein E precursor (Apo-E) 5.4 35866 -0.74 Q9JIX8 Apoptotic chromatin condensation inducer in the nucleus (Acinus) 5.7 150690 -1.32 P55088 Aquaporin 4 (WCH4) (Mercurial-insensitive water channel) (MIWC) 7.5 34436 0.47 Q9JKW0 ARL-6 interacting protein-1 (Aip-1) (TBX2 protein) 9.8 23436 0.2 P98203 Armadillo repeat protein deleted in velo-cardio-facial syndrome homolog 6.9 105412 -0.53 P59999 ARP2/3 complex 20 kDa subunit (p20-ARC) 8.7 19535 -0.14 O54984 Arsenical pump-driving ATPase (EC 3.6.3.16) 4.5 38822 -0.12 Q99MR6 Arsenite-resistance protein 2 5.8 100452 -1.12 Q8BP47 Asparaginyl-tRNA synthetase, cytoplasmic (EC 6.1.1.22) 5.8 63065 -0.52 P05201 Aspartate aminotransferase, cytoplasmic (EC 2.6.1.1) (Transaminase A) 7.2 46100 -0.27 P05202 Aspartate aminotransferase, mitochondrial precursor (EC 2.6.1.1) 9.4 47411 -0.23 Q9Z2W0 Aspartyl aminopeptidase (EC 3.4.11.21) 7.1 52166 -0.14 Q922B2 Aspartyl-tRNA synthetase (EC 6.1.1.12) (Aspartate--tRNA ligase) (AspRS) 6.5 57117 -0.4 Q62048 Astrocytic phosphoprotein PEA-15 4.7 15054 -0.64 Q9JJ43 Ataxin 2-binding protein 1 7.1 42589 -0.53 Q03265 ATP synthase alpha chain, mitochondrial precursor (EC 3.6.3.14) 9.6 59752 -0.1 Q9CQQ7 ATP synthase B chain, mitochondrial precursor (EC 3.6.3.14) 9.5 28948 -0.15 P56480 ATP synthase beta chain, mitochondrial precursor (EC 3.6.3.14) 5 56300 0.03 P97450 ATP synthase coupling factor 6, mitochondrial precursor (EC 3.6.3.14) 9.9 12496 -0.55 Q9DCX2 ATP synthase D chain, mitochondrial (EC 3.6.3.14) 5.4 18618 -0.67 Q06185 ATP synthase e chain, mitochondrial (EC 3.6.3.14) 9.8 8104 -0.61 P56382 ATP synthase epsilon chain, mitochondrial (EC 3.6.3.14) 10.7 5706 -0.33 P56135 ATP synthase f chain, mitochondrial (EC 3.6.3.14) 10.4 10213 -0.33 Q9CPQ8 ATP synthase g chain, mitochondrial (EC 3.6.3.14) (ATPase subunit G) 10.3 11424 0.22 Q91VR2 ATP synthase gamma chain, mitochondrial precursor (EC 3.6.3.14) 9.5 32885 -0.16 Q9DB20 ATP synthase oligomycin sensitivity conferral protein, mitochondrial precursor 10.7 23363 -0.06 P03930 ATP synthase protein 8 (EC 3.6.3.14) (ATPase subunit 8) (A6L) 10.6 7766 0.14 Q61102 ATP-binding cassette, sub-family B, member 7, mitochondrial 9.4 76417 -0.03 Q91V92 ATP-citrate synthase (EC 2.3.3.8) (ATP-citrate (pro-S-)-lyase) 7.5 119727 -0.1 O70133 ATP-dependent RNA helicase A (Nuclear DNA helicase II) (NDH II) 6.9 149582 -0.33 Q9Z2H5 Band 4.1-like protein 1 (Neuronal protein 4.1) (4.1N) 5.4 98314 -0.78 O70318 Band 4.1-like protein 2 (Generally expressed protein 4.1) (4.1G) 5.1 109833 -0.83 Q9WV92 Band 4.1-like protein 3 (4.1B) 5 103337 -0.79 P18572 Basigin precursor (CD147 antigen) (Basic immunoglobulin superfamily) 5.6 42444 -0.34 O88737 Bassoon protein 7.8 418613 -0.85 Q61335 B-cell receptor-associated protein 31 (BCR-associated protein Bap31) 9.2 27791 -0.22 Q02248 Beta-catenin 5.7 85470 -0.17 P20060 Beta-hexosaminidase beta chain precursor (EC 3.2.1.52) 8.2 61115 -0.26 P28663 Beta-soluble NSF attachment protein (SNAP-beta) 5.2 33556 -0.46 Q8CGC7 Bifunctional aminoacyl-tRNA synthetase 7.6 169936 -0.49 Q9CWJ9 Bifunctional purine biosynthesis protein PURH 6.7 64157 -0.06 Q9JKC6 BM88 antigen 9.7 14986 -0.56 Q8BGS2 BolA-like protein My016 6.1 10214 -0.72 P63054 Brain-specific polypeptide PEP-19 (Brain-specific antigen PCP-4) 6.8 6676 -1.39 P24288 Branched-chain-amino-acid aminotransferase, cytosolic (EC 2.6.1.42) 5 42791 -0.12 Q61361 Brevican core protein precursor 4.6 96012 -0.42 Q8VHQ9 Brown fat inducible thioesterase (EC 3.1.2.-) (BFIT) 6.8 67354 -0.37 Q922D8 C-1-tetrahydrofolate synthase, cytoplasmic (C1-THF synthase) 7.1 101124 -0.07 P12658 Calbindin (Vitamin D-dependent calcium-binding protein, avian-type) 4.4 29862 -0.49 Q63810 Calcineurin B subunit isoform 1 4.4 19141 -0.38 Q06138 Calcium binding protein 39 (Mo25 protein) 7.2 39841 -0.4 P11798 Calcium/calmodulin-dependent protein kinase type II alpha chain 7.3 54324 -0.41 P28652 Calcium/calmodulin-dependent protein kinase type II beta chain 7.3 60474 -0.36 P08414 Calcium/calmodulin-dependent protein kinase type IV (EC 2.7.1.123) 4.6 52627 -0.5

4 Q8BH59 Calcium-binding mitochondrial carrier protein Aralar1 8.4 74569 -0.03 Q8C5W0 Calmin 4.7 117226 -0.73 P62204 Calmodulin (CaM) 3.8 16706 -0.67 P35564 Calnexin precursor 4.2 67277 -0.87 O08529 Calpain 2, large [catalytic] subunit precursor (EC 3.4.22.53) 4.6 79740 -0.43 P51125 Calpain inhibitor (Calpastatin) 5.2 84921 -1.16 P14211 Calreticulin precursor (CRP55) (Calregulin) (HACBP) (ERp60) 4.1 47994 -1.09 Q08331 Calretinin (CR) 4.7 31372 -0.66 O35887 Calumenin precursor (Crocalbin) 4.3 37063 -1.01 P12367 cAMP-dependent protein kinase type II-alpha regulatory subunit 4.5 45257 -0.5 P05132 cAMP-dependent protein kinase, alpha-catalytic subunit (EC 2.7.1.37) 9.2 40439 -0.41 P68181 cAMP-dependent protein kinase, beta-catalytic subunit (EC 2.7.1.37) 8.9 40576 -0.39 P00920 Carbonic anhydrase II (EC 4.2.1.1) (Carbonate dehydratase II) (CA-II) 7 28960 -0.59 P28651 Carbonic anhydrase-related protein (CARP) (CA-VIII) 4.4 32949 -0.36 P48758 Carbonyl reductase [NADPH] 1 (EC 1.1.1.184) 7.9 30596 -0.35 P67871 Casein kinase II beta subunit (CK II beta) (Phosvitin) 5.3 24942 -0.46 Q60737 Casein kinase II, alpha chain (CK II) (EC 2.7.1.37) 8.2 45161 -0.45 Q6P9K8 Caskin-1 (CASK interacting protein 1) 9.7 150494 -0.55 P24270 Catalase (EC 1.11.1.6) 8 59633 -0.64 O35927 Catenin delta-2 (Neural plakophilin-related ARM-repeat protein) (NPRAP) 7.7 134999 -0.58 P10605 Cathepsin B precursor (EC 3.4.22.1) (Cathepsin B1) 5.8 37279 -0.31 P18242 Cathepsin D precursor (EC 3.4.23.5) 7.2 44953 -0.04 P35762 CD81 antigen (26 kDa cell surface protein TAPA-1) 5.6 25828 0.7 Q9JM96 Cdc42 effector protein 4 (Binder of Rho GTPase 4) 5 37869 -0.67 P60766 Cell division control protein 42 homolog (G25K GTP-binding protein) 5.8 21310 -0.16 P53996 Cellular nucleic acid binding protein (CNBP) (Zinc finger protein 9) 7.6 19591 -0.86 Q8BXK8 Centaurin gamma 2 8 94410 -0.48 Q9JHG0 Cerebellin 3 precursor 6.3 21076 0.02 Q91XM9 Channel associated protein of synapse-110 (Chapsyn-110) 6.2 94802 -0.48 Q8BHB9 Chloride intracellular channel 6 4 62885 -0.85 Q9Z1Q5 Chloride intracellular channel protein 1 (Nuclear chloride ion channel 27) 4.8 26881 -0.31 Q60972 Chromatin assembly factor 1 subunit C (CAF-1 subunit C) 4.7 51770 -0.55 P23198 Chromobox protein homolog 3 (Heterochromatin protein 1 homolog gamma) 4.9 20855 -1 Q9CZU6 Citrate synthase, mitochondrial precursor (EC 2.3.3.1) 8.8 51736 -0.19 P62743 Clathrin coat assembly protein AP17 (Clathrin coat associated protein AP17) 6.1 17017 -0.05 Q61548 Clathrin coat assembly protein AP180 4.5 91851 -0.06 P84091 Clathrin coat assembly protein AP50 (Clathrin coat associated protein AP50) 10.1 49654 -0.27 O08585 Clathrin light chain A (Lca) 4.2 25556 -0.73 Q60771 Claudin-11 (Oligodendrocyte transmembrane protein) 8 22114 0.85 Q06890 Clusterin precursor (Sulfated glycoprotein 2) (SGP-2) (Clustrin) 5.4 51655 -0.55 Q9CQI6 Coactosin-like protein 5 15943 -0.4 P45591 Cofilin, muscle isoform (Cofilin-2) 8.2 18709 -0.39 P18760 Cofilin, non-muscle isoform (Cofilin-1) 8.3 18428 -0.4 P08122 Collagen alpha 2(IV) chain precursor 8.8 167391 -0.57 O35658 Complement component 1, Q subcomponent binding protein, mitochondrial 4.6 31012 -0.5 P63040 Complexin 1 (Synaphin 2) (921-S) 4.6 15122 -1.18 P84086 Complexin 2 (Synaphin 1) (921-L) 4.7 15394 -1.37 P12960 Contactin 1 precursor (Neural cell surface protein F3) 6.1 113388 -0.31 Q61330 Contactin 2 precursor (Axonin-1) (Axonal glycoprotein TAG-1) 7.7 113216 -0.32 O54991 Contactin associated protein 1 precursor (Caspr) (Caspr1) (Neurexin 4) 7.1 156437 -0.3 Q99LD4 COP9 signalosome complex subunit 1 (Signalosome subunit 1) (SGN1) 6.8 53442 -0.35 P61202 COP9 signalosome complex subunit 2 (Signalosome subunit 2) (SGN2) 5.2 51596 -0.63 O35864 COP9 signalosome complex subunit 5 (EC 3.4.-.-) (Signalosome subunit 5) 6.5 37548 -0.37 Q8JZW4 Copine V 5.5 65592 -0.29 O89053 Coronin-1A (Coronin-like protein p57) (Coronin-like protein A) (CLIPINA) 6.4 50989 -0.28 Q9WUM4 Coronin-1C (Coronin-3) 7.1 53120 -0.35 Q8BH44 Coronin-2B 8.2 54375 -0.39 Q04447 Creatine kinase, B chain (EC 2.7.3.2) (B-CK) 5.4 42713 -0.46 P30275 Creatine kinase, ubiquitous mitochondrial precursor (EC 2.7.3.2) (U-MtCK) 8.3 47003 -0.41 P47941 Crk-like protein 6.7 33829 -0.59 O88712 C-terminal binding protein 1 (EC 1.1.1.-) (CtBP1) 6.8 47657 -0.12 P46414 Cyclin-dependent kinase inhibitor 1B (Cyclin-dependent kinase inhibitor p27) 7 22210 -1.26

5 P21460 Cystatin C precursor (Cystatin 3) 9.3 15530 -0.24 P97315 Cysteine and glycine-rich protein 1 (Cysteine-rich protein 1) (CRP1) (CRP) 8.7 20452 -0.55 P56395 Cytochrome b5 4.7 15109 -0.59 P00405 polypeptide II (EC 1.9.3.1) 4.4 25976 0.27 P00416 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) 7.3 29936 0.45 P12787 Cytochrome c oxidase polypeptide Va, mitochondrial precursor (EC 1.9.3.1) 6.5 16030 -0.17 P19536 Cytochrome c oxidase polypeptide Vb, mitochondrial precursor (EC 1.9.3.1) 8.5 13812 -0.31 P56391 Cytochrome c oxidase polypeptide VIb (EC 1.9.3.1) 8.9 9940 -0.8 Q9CPQ1 Cytochrome c oxidase polypeptide VIc (EC 1.9.3.1) 10.7 8337 -0.16 P17665 Cytochrome c oxidase polypeptide VIIc, mitochondrial precursor (EC 1.9.3.1) 11.6 7332 -0.15 P19783 Cytochrome c oxidase subunit IV isoform 1, mitochondrial precursor 9.7 19530 -0.41 P62897 Cytochrome c, somatic 10.2 11474 -0.78 Q9D0M3 Cytochrome c1, heme protein, mitochondrial precursor (Cytochrome c-1) 9.4 35327 -0.25 Q9CPY7 Cytosol aminopeptidase (EC 3.4.11.1) (Leucine aminopeptidase) (LAP) 7 52618 -0.18 Q91V12 Cytosolic acyl coenzyme A thioester (EC 3.1.2.2) 8.9 42536 -0.36 Q61753 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) (3-PGDH) (A10) 6.5 56454 0.09 P18894 D-amino-acid oxidase (EC 1.4.3.3) (DAMOX) (DAO) (DAAO) 7.4 38714 -0.17 Q8K3H0 DCC-interacting protein 13 alpha (Dip3 alpha) 5.1 79327 -0.57 O35215 D-dopachrome tautomerase (EC 5.3.3.-) 6.5 12945 0.08 Q8CHT0 Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial precursor 8.5 61810 -0.21 P10518 Delta-aminolevulinic acid dehydratase (EC 4.2.1.24) 6.8 36023 0.04 Q9R0P5 Destrin (Actin-depolymerizing factor) (ADF) (Sid 23) 8.1 18390 -0.28 Q9QXB9 Developmentally regulated GTP-binding protein 2 (DRG 2) 9.2 40718 -0.14 O08749 Dihydrolipoyl dehydrogenase, mitochondrial precursor (EC 1.8.1.4) 8 54212 -0.03 P97427 Dihydropyrimidinase related protein-1 (DRP-1) 7.1 62167 -0.25 O08553 Dihydropyrimidinase related protein-2 (DRP-2) (ULIP 2 protein) 6.3 62170 -0.25 Q62188 Dihydropyrimidinase related protein-3 (DRP-3) (Unc-33-like phosphoprotein) 6.5 61936 -0.26 O35098 Dihydropyrimidinase related protein-4 (DRP-4) 7 61961 -0.18 Q9Z218 Dipeptidyl aminopeptidase-like protein 6 (Dipeptidylpeptidase VI) 6.7 91260 -0.42 Q99LX0 DJ-1 protein 6.8 20021 0.02 P28352 DNA-(apurinic or apyrimidinic site) lyase (EC 4.2.99.18) (AP endonuclease 1) 8 35359 -0.6 Q9QYJ0 DnaJ homolog subfamily A member 2 (mDj3) 6.4 45745 -0.69 Q9QYI8 DnaJ homolog subfamily B member 7 (mDJ5) 8.7 35626 -1.1 P60904 DnaJ homolog subfamily C member 5 (Cysteine string protein) (CSP) 4.7 22100 -0.48 Dolichyl-diphosphooligosaccharide--protein 67 kDa Q91YQ5 subunit 6.4 68528 -0.21 Q60829 Dopamine- and cAMP-regulated neuronal phosphoprotein (DARPP-32) 4.3 21780 -1.47 Q9QXS6 Drebrin (Developmentally regulated brain protein) 4.1 77286 -0.75 Q62418 Drebrin-like protein (SH3 domain-containing protein 7) 4.6 48699 -0.87 P31938 Dual specificity mitogen-activated protein kinase kinase 1 (EC 2.7.1.-) 6.7 43342 -0.3 Q99KJ8 Dynactin complex 50 kDa subunit (50 kDa dynein-associated polypeptide) 4.9 43985 -0.48 O08788 Dynactin-1 (150 kDa dynein-associated polypeptide) (DP-150) (DAP-150) 5.8 141789 -0.58 P39054 Dynamin 2 (EC 3.6.5.5) (Dynamin UDNM) 7.5 98145 -0.45 P39053 Dynamin-1 (EC 3.6.5.5) 7.9 97802 -0.53 P58281 Dynamin-like 120 kDa protein, mitochondrial precursor 7.6 111338 -0.58 Q9JHU4 Dynein heavy chain, cytosolic (DYHC) (Cytoplasmic dynein heavy chain) 6.4 532024 -0.34 O88485 Dynein intermediate chain 1, cytosolic (DH IC-1) 4.8 70678 -0.63 Q9D0M5 Dynein light chain 2, cytoplasmic (8 kDa dynein light chain) (DLC8) (DLC8b) 7.5 10349 -0.46 Q9D2N4 Dystrobrevin alpha (Alpha-dystrobrevin) 6.7 84048 -0.54 P46935 E3 ubiquitin-protein ligase Nedd-4 (EC 6.3.2.-) 4.9 102705 -0.72 Q9D8Y0 EF-hand domain-containing protein 2 (Swiprosin 1) 4.7 26791 -0.65 Q9WVK4 EH-domain containing protein 1 (mPAST1) 6.8 60602 -0.36 Q9QXY6 EH-domain containing protein 3 6.4 60868 -0.35 P70372 ELAV-like protein 1 (Hu-antigen R) (HuR) (Elav-like generic protein) (MelG) 9.6 36068 -0.33 Q61701 ELAV-like protein 4 (Paraneoplastic encephalomyelitis antigen HuD) 9.8 42368 -0.39 Q99LC5 Electron transfer flavoprotein alpha-subunit, mitochondrial precursor 8.6 35039 0.12 Q9DCW4 Electron transfer flavoprotein beta-subunit (Beta-ETF) 8.6 27309 -0.09 Q921G7 Electron transfer flavoprotein-ubiquinone , 7.6 68090 -0.31 P10126 Elongation factor 1-alpha 1 (EF-1-alpha-1) (Elongation factor 1 A-1) 9.5 50113 -0.25 P62631 Elongation factor 1-alpha 2 (EF-1-alpha-2) (Elongation factor 1 A-2) 9.5 50454 -0.3 O70251 Elongation factor 1-beta (EF-1-beta) 4.3 24562 -0.49 P57776 Elongation factor 1-delta (EF-1-delta) 4.6 31161 -0.66

6 Q9D8N0 Elongation factor 1-gamma (EF-1-gamma) (eEF-1B gamma) 6.7 49929 -0.49 P58252 Elongation factor 2 (EF-2) 6.8 95182 -0.21 Q9CZR8 Elongation factor Ts, mitochondrial precursor (EF-Ts) (EF-TsMt) 7.1 35334 -0.2 Q03173 Enabled protein homolog (NPC derived proline-rich protein 1) (NDPP-1) 7.8 85844 -0.78 P57759 Endoplasmic reticulum protein ERp29 precursor 5.9 28823 -0.21 P08113 Endoplasmin precursor (Endoplasmic reticulum protein 99) 4.5 92475 -0.72 Q8CI51 Enigma homolog (Enigma-like PDZ and LIM domains protein) 8.3 63329 -0.44 P42567 Epidermal growth factor receptor substrate 15 (Protein Eps15) (AF-1p protein 4.2 98470 -0.6 Q99MI1 ERC protein 1 (Rab6-interacting protein 2) (Rab6IP2) 5.7 128330 -0.98 Q6PH08 ERC protein 2 (CAZ-associated structural protein 1) (CAST1) 7 110638 -1.05 Q9D172 ES1 protein homolog, mitochondrial precursor 9.1 28090 -0.02 P60843 Eukaryotic initiation factor 4A-I (eIF4A-I) (eIF-4A-I) 5.1 46153 -0.26 P10630 Eukaryotic initiation factor 4A-II (eIF4A-II) (eIF-4A-II) 5.1 46402 -0.26 Q99L45 Eukaryotic translation initiation factor 2 subunit 2 5.5 38091 -1 P23116 Eukaryotic translation initiation factor 3 subunit 10 (eIF-3 theta) (eIF3 p167) 6.7 161949 -1.45 Q80XI3 Eukaryotic translation initiation factor 4 gamma 3 (eIF-4-gamma 3) (eIF-4G 3) 5.2 174889 -0.63 Q8BGD9 Eukaryotic translation initiation factor 4B (eIF-4B) 5.3 68839 -1.54 P59325 Eukaryotic translation initiation factor 5 (eIF-5) 5.2 48968 -0.78 P56564 Excitatory amino acid transporter 1 8.7 59622 0.38 P43006 Excitatory amino acid transporter 2 6.7 62030 0.41 O35544 Excitatory amino acid transporter 4 9 60784 0.4 P70441 Ezrin-radixin-moesin binding phosphoprotein 50 (EBP50) 5.7 38600 -0.74 P47753 F-actin capping protein alpha-1 subunit (CapZ alpha-1) 5.2 32939 -0.65 P47754 F-actin capping protein alpha-2 subunit (CapZ alpha-2) 5.7 32835 -0.6 P47757 F-actin capping protein beta subunit (CapZ beta) 5.4 31214 -0.57 Q91WJ8 Far upstream element binding protein 1 (FUSE binding protein 1) (FBP) 8.1 68539 -0.72 P19096 Fatty acid synthase (EC 2.3.1.85) 6.6 272427 -0.09 P11404 Fatty acid-binding protein, heart (H-FABP) 6.5 14687 -0.35 Q80UW2 F-box only protein 2 3.9 33675 -0.6 P09528 Ferritin heavy chain (Ferritin H subunit) 5.8 20935 -0.75 Q8BTM8 Filamin A (Alpha-filamin) (Filamin 1) (Endothelial actin-binding protein)- 5.9 281192 -0.32 P26883 FK506-binding protein 1A (EC 5.2.1.8) (Peptidyl-prolyl cis-trans isomerase) 8.5 11791 -0.4 P45878 FK506-binding protein 2 precursor (EC 5.2.1.8) 9.3 15343 -0.17 Q62446 FK506-binding protein 3 (EC 5.2.1.8) (Peptidyl-prolyl cis-trans isomerase) 10 25147 -0.75 P30416 FK506-binding protein 4 (EC 5.2.1.8) (Peptidyl-prolyl cis-trans isomerase) 5.5 51441 -0.59 P05064 Fructose-bisphosphate aldolase A (EC 4.1.2.13) (Muscle-type aldolase) 8.2 39224 -0.28 P05063 Fructose-bisphosphate aldolase C (EC 4.1.2.13) (Brain-type aldolase) 7.1 39263 -0.24 P97807 Fumarate hydratase, mitochondrial precursor (EC 4.2.1.2) (Fumarase) 9.5 54370 -0.07 P16045 Galectin-1 (Beta-galactoside-binding lectin L-14-I) (Lactose-binding lectin 1) 5.2 14734 -0.28 Q9QYB5 Gamma adducin (Adducin-like protein 70) 5.8 78762 -0.55 P17183 Gamma enolase (EC 4.2.1.11) (2-phospho-D-glycerate hydro-lyase) 4.7 47165 -0.2 P60521 Gamma-aminobutyric acid receptor-associated protein-like 2 8.4 13666 -0.32 P62812 Gamma-aminobutyric-acid receptor alpha-1 subunit precursor 9.7 51753 -0.23 P16305 Gamma-aminobutyric-acid receptor alpha-6 subunit precursor 7.9 51107 0.06 P63137 Gamma-aminobutyric-acid receptor beta-2 subunit precursor 9.7 54633 -0.07 Q9CWZ7 Gamma-soluble NSF attachment protein (SNAP-gamma) 5.1 34732 -0.56 Q9Z0F7 Gamma-synuclein (Persyn) 4.3 13159 -0.65 O88741 Ganglioside-induced differentiation associated protein 1 (GDAP1) 8.6 41310 -0.39 P23242 Gap junction alpha-1 protein (Connexin 43) (Cx43) 9 42873 -0.22 Q9JHK4 Geranylgeranyl type II alpha subunit (EC 2.5.1.60) 5.6 64989 -0.26 Q9CQI3 Glia maturation factor beta (GMF-beta) 4.8 16591 -0.54 P03995 Glial fibrillary acidic protein, (GFAP) 5.2 49916 -0.8 Q00612 Glucose-6-phosphate 1-dehydrogenase X (EC 1.1.1.49) (G6PD) 6.5 59131 -0.43 P06745 Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) 8.1 62636 -0.3 O08795 Glucosidase II beta subunit precursor 4.1 58792 -0.93 P26443 Glutamate dehydrogenase 1, mitochondrial precursor (EC 1.4.1.3) (GDH) 8.1 61336 -0.31 Q9Z2W8 Glutamate receptor 4 precursor (GluR-4) (GluR4) (GluR-D) 7.9 100631 -0.11 Q61625 Glutamate receptor delta-2 subunit precursor (GluR delta-2) 6 113081 -0.17 P15105 Glutamine synthetase (EC 6.3.1.2) (Glutamate--ammonia ligase) (GS) 6.9 42145 -0.59 Q80Y14 Glutaredoxin-related protein C14orf87 homolog 6.5 16292 -0.24 P47791 Glutathione reductase, mitochondrial precursor (EC 1.8.1.7) (GR) (GRase) 8.1 53662 -0.07 P24472 Glutathione S-transferase 5.7 (EC 2.5.1.18) (GST 5.7) (GST class-alpha) 7.6 25563 -0.2

7 Q9DCM2 Glutathione S-transferase kappa 1 (EC 2.5.1.18) (GST 13-13) 9.3 25572 -0.14 P10649 Glutathione S-transferase Mu 1 (EC 2.5.1.18) (GST class-mu 1) 8.2 25838 -0.54 P48774 Glutathione S-transferase Mu 5 (EC 2.5.1.18) (GST class-mu 5) 7.3 26634 -0.38 P46425 Glutathione S-transferase P 2 (EC 2.5.1.18) (GST YF-YF) (GST-piA) 8 23405 -0.32 P16858 Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH) 8.4 35678 -0.1 Q64516 Glycerol kinase (EC 2.7.1.30) (ATP:glycerol 3-phosphotransferase) 5.4 57457 -0.03 P13707 Glycerol-3-phosphate dehydrogenase [NAD+], cytoplasmic (EC 1.1.1.8) 7.2 37441 0.1 Q64521 Glycerol-3-phosphate dehydrogenase, mitochondrial precursor (EC 1.1.99.5) 6.6 80899 -0.21 Q8CI94 , brain form (EC 2.4.1.1) 6.7 96598 -0.33 Q9WUB3 , muscle form (EC 2.4.1.1) (Myophosphorylase) 7.1 97154 -0.4 Q9WV60 kinase-3 beta (EC 2.7.1.37) (GSK-3 beta) 9 46710 -0.31 Q9JL62 Glycolipid transfer protein (GLTP) 7.5 23558 -0.08 Q9CZD3 Glycyl-tRNA synthetase (EC 6.1.1.14) (Glycine--tRNA ligase) (GlyRS) 6.6 81877 -0.31 Q91Z53 Glyoxylate reductase/hydroxypyruvate reductase (EC 1.1.1.79) 7.8 35328 0.03 Q60631 Growth factor receptor-bound protein 2 (GRB2 adapter protein) 6.3 25238 -0.68 Q99LP6 GrpE protein homolog 1, mitochondrial precursor (Mt-GrpE#1) 8.6 24306 -0.53 P62827 GTP-binding nuclear protein Ran (GTPase Ran) (Ras-like protein TC4) 7.6 24423 -0.27 Q9CQC9 GTP-binding protein SAR1b 6 22381 -0.08 P68040 Guanine nucleotide-binding protein beta subunit 2-like 1 7.8 35076 -0.25 P62881 Guanine nucleotide-binding protein beta subunit 5 (Transducin beta chain 5) 6.4 43565 -0.24 P08752 Guanine nucleotide-binding protein G(i), alpha-2 subunit 5.1 40339 -0.37 Q9DAS9 Guanine nucleotide-binding protein G(I)/G(S)/G(O) gamma-12 subunit 9.4 7866 -0.43 P63213 Guanine nucleotide-binding protein G(I)/G(S)/G(O) gamma-2 subunit 8.2 7718 -0.21 P63216 Guanine nucleotide-binding protein G(I)/G(S)/G(O) gamma-3 subunit 7.9 8304 -0.12 Q80SZ7 Guanine nucleotide-binding protein G(I)/G(S)/G(O) gamma-5 subunit 10.6 7318 -0.1 P62874 Guanine nucleotide-binding protein G(I)/G(S)/G(T) beta subunit 1 5.8 37376 -0.23 P62880 Guanine nucleotide-binding protein G(I)/G(S)/G(T) beta subunit 2 5.9 37330 -0.18 P18873 Guanine nucleotide-binding protein G(o), alpha subunit 2 5.9 39905 -0.38 P21279 Guanine nucleotide-binding protein G(q), alpha subunit 5.5 41483 -0.47 P63094 Guanine nucleotide-binding protein G(s), alpha subunit 5.8 45663 -0.6 O70443 Guanine nucleotide-binding protein G(z), alpha subunit (G(x) alpha chain) 7.7 40718 -0.37 P27601 Guanine nucleotide-binding protein, alpha-13 subunit (G alpha 13) 8.4 44054 -0.42 Q8K0U4 Heat shock 70 kDa protein 12A 6.8 74871 -0.24 Q61316 Heat shock 70 kDa protein 4 (Heat shock 70-related protein APG-2) 4.9 94132 -0.57 P48722 Heat shock 70 kDa protein 4L (Osmotic stress protein 94) 5.5 94381 -0.56 P63017 Heat shock cognate 71 kDa protein (Heat shock 70 kDa protein 8) 5.2 70870 -0.45 P07901 Heat shock protein HSP 90-alpha (HSP 86) 4.6 84656 -0.75 P11499 Heat shock protein HSP 90-beta (HSP 84) 4.7 83193 -0.69 P17156 Heat shock-related 70 kDa protein 2 (Heat shock protein 70.2) 5.4 69740 -0.5 Q61699 Heat-shock protein 105 kDa (Heat shock-related 100 kDa protein E7I) 5.3 96492 -0.57 P14602 Heat-shock protein beta-1 (HspB1) (Heat shock 27 kDa protein) (HSP 27) 6.5 23013 -0.44 P01942 Hemoglobin alpha chain 8.5 14953 -0.05 P02088 Hemoglobin beta-1 chain (B1) (Hemoglobin beta-major chain) 7.8 15708 0.06 P02089 Hemoglobin beta-2 chain (B2) (Hemoglobin beta-minor chain) 8.3 15747 0.01 P51859 Hepatoma-derived growth factor (HDGF) 4.5 26268 -1.27 Q99020 Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) 8.2 30831 -0.89 P49312 Heterogeneous nuclear ribonucleoprotein A1 (Helix-destabilizing protein) 9.6 34064 -0.89 Q8BG05 Heterogeneous nuclear ribonucleoprotein A3 (hnRNP A3) 9.3 39651 -0.99 Q60668 Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) 8 38354 -0.9 O35479 Heterogeneous nuclear ribonucleoprotein G (hnRNP G) 10.3 42233 -1.36 O35737 Heterogeneous nuclear ribonucleoprotein H (hnRNP H) 6.2 49068 -0.6 P70333 Heterogeneous nuclear ribonucleoprotein H' (hnRNP H') 6.2 49279 -0.61 P61979 Heterogeneous nuclear ribonucleoprotein K 5.2 50976 -0.7 Q8R081 Heterogeneous nuclear ribonucleoprotein L (hnRNP L) 7.1 60123 -0.57 Q9D0E1 Heterogeneous nuclear ribonucleoprotein M (hnRNP M) 9 77517 -0.34 Q7TMK9 Heterogeneous nuclear ribonucleoprotein Q (hnRNP Q) 8.9 69632 -0.88 O88569 Heterogeneous nuclear ribonucleoproteins A2/B1 (hnRNP A2 / hnRNP B1) 8.9 35992 -0.91 Q9Z204 Heterogeneous nuclear ribonucleoproteins C1/C2 (hnRNP C1 / hnRNP C2) 4.7 34384 -0.96 P17710 Hexokinase, type I (EC 2.7.1.1) (HK I) (Hexokinase, tumor isozyme) 6.9 108302 -0.27 P63158 High mobility group protein 1 (HMG-1) (High mobility group protein B1) 5.4 24762 -1.63 P17095 High mobility group protein HMG-I/HMG-Y (HMG-I(Y)) 11.1 11482 -1.77 P62748 Hippocalcin-like protein 1 (Visinin-like protein 3) (VILIP-3) 5.2 22206 -0.63

8 P10922 Histone H1' (H1.0) (H1(0)) 11.7 20729 -1.07 P15864 Histone H1.2 (H1 VAR.1) (H1c) 11.8 21135 -0.62 P43274 Histone H1.4 (H1 VAR.2) (H1e) 11.9 21846 -0.83 P43276 Histone H1.5 (H1 VAR.5) (H1b) 11.7 22444 -0.85 P10812 Histone H2A.291.A 11.8 14530 -0.57 P20670 Histone H2A.o (H2A/o) (H2A.2) (H2a-615) 11.6 13964 -0.49 P10854 Histone H2B 291B 11 13804 -0.78 P10853 Histone H2B F (H2B 291A) 11 13804 -0.76 P84228 Histone H3.2 11.8 15256 -0.62 P62806 Histone H4 11.9 11236 -0.55 Q99JP6 Homer protein homolog 3 (Homer-3) 5 39677 -0.7 Q9JKY5 Huntingtin interacting protein 1 related (Hip1-related) 6.5 119485 -0.54 Q9QUP5 Hyaluronan and proteoglycan link protein 1 precursor 7.9 40477 -0.34 P00493 Hypoxanthine-guanine phosphoribosyltransferase (EC 2.4.2.8) (HGPRT) 6.7 24439 -0.14 Q9EPL8 Importin 7 (Imp7) (Ran-binding protein 7) (RanBP7) 4.4 119486 -0.25 Q60960 Importin alpha-1 subunit (Karyopherin alpha-1 subunit) (SRP1-beta) 4.6 60182 -0.25 P70168 Importin beta-1 subunit (Karyopherin beta-1 subunit) (Nuclear factor P97) 4.4 97151 -0.09 P11881 Inositol 1,4,5-trisphosphate receptor type 1 5.9 313196 -0.32 O55023 Inositol-1(or 4)-monophosphatase (EC 3.1.3.25) (IMPase) (IMP) 4.8 30436 0.02 Q8R071 Inositol-trisphosphate 3-kinase A (EC 2.7.1.127) 7.8 50934 -0.55 O89051 Integral membrane protein 2B (E25B protein) 4.9 30259 -0.08 Q9Z1X4 Interleukin enhancer-binding factor 3 9.7 98041 -0.73 P70404 Isocitrate dehydrogenase [NAD] subunit gamma, 9.3 42785 -0.07 O88844 Isocitrate dehydrogenase [NADP] cytoplasmic (EC 1.1.1.42) (Oxalosuccinate 6.9 46660 -0.39 P54071 Isocitrate dehydrogenase [NADP], mitochondrial precursor (EC 1.1.1.42) 8.8 58748 -0.4 Q9QXL2 Kinesin family member 21A 6.2 186535 -0.68 Q61768 Kinesin heavy chain (Ubiquitous kinesin heavy chain) (UKHC) 6.2 109549 -0.84 P28738 Kinesin heavy chain isoform 5C (Kinesin heavy chain neuron-specific 2) 6.1 109240 -0.79 O88447 Kinesin light chain 1 (KLC 1) 5.5 60926 -0.84 P33173 Kinesin-like protein KIF1A (Axonal transporter of synaptic vesicles) 6.1 191724 -0.52 P28740 Kinesin-like protein KIF2 6.2 80946 -0.66 Q8BTY1 Kynurenine--oxoglutarate transaminase I (EC 2.6.1.7) 6.9 47563 -0.21 Q9CPU0 Lactoylglutathione lyase (EC 4.4.1.5) (Methylglyoxalase) (Aldoketomutase) 5.1 20678 -0.55 P14733 Lamin B1 4.8 66654 -0.82 P21619 Lamin B2 5.3 67029 -0.84 P48680 Lamin B3 5.8 53268 -0.92 Q61029 Lamina-associated polypeptide 2 isoforms beta/delta/epsilon/gamma 10 50163 -0.81 Q61292 Laminin beta-2 chain precursor (S-laminin) (S-LAM) 6.7 196352 -0.48 P02468 Laminin gamma-1 chain precursor (Laminin B2 chain) 4.8 177298 -0.62 P11516 Lamins C and C2 6.8 65445 -0.96 Q9JJK2 LanC-like protein 2 (Testis-specific adriamycin sensitivity protein) 7.3 50777 -0.32 Q9Z127 Large neutral amino acids transporter small subunit 1 8 55902 0.71 P70202 Latexin 5.6 25491 -0.59 O89017 Legumain precursor (EC 3.4.22.34) (Asparaginyl endopeptidase) 6.4 49372 -0.37 Q9JIA1 Leucine-rich glioma-inactivated protein 1 precursor 8.1 63643 -0.19 Q8K406 Leucine-rich repeat LGI family member 3 precursor 8.2 61817 -0.13 P24527 Leukotriene A-4 hydrolase (EC 3.3.2.6) (LTA-4 hydrolase) 6.4 68889 -0.25 Q61792 LIM and SH3 domain protein 1 (LASP-1) (MLN 50) 7.1 29994 -1.06 Q8BLK3 Limbic system-associated membrane protein precursor (LSAMP) 6.6 38086 -0.4 Q8JZS0 LIN-7 homolog A (LIN-7A) (mLin-7) (Mammalian LIN-seven protein 1) 9.1 25992 -0.49 Q99JY8 Lipid phosphate phosphohydrolase 3 (EC 3.1.3.4) 9.3 35216 0.13 P60469 Liprin-alpha 3 5.8 116279 -0.71 P06151 L-lactate dehydrogenase A chain (EC 1.1.1.27) (LDH-A) 7.8 36367 0.06 P16125 L-lactate dehydrogenase B chain (EC 1.1.1.27) (LDH-B) (LDH heart subunit) 5.9 36441 0.04 Q91WC3 Long-chain-fatty-acid--CoA ligase 6 (EC 6.2.1.3) 7.4 78017 -0.14 Q61233 L-plastin (Lymphocyte cytosolic protein 1) (LCP-1) 5 70149 -0.29 P32067 Lupus La protein homolog (La ribonucleoprotein) (La autoantigen homolog) 10.5 47756 -1.02 P34884 Macrophage migration inhibitory factor (MIF) (Phenylpyruvate tautomerase) 7.4 12373 -0.04 Q9WV34 MAGUK p55 subfamily member 2 (MPP2 protein) (Dlgh2 protein) 6.4 61554 -0.37 O88910 MAGUK p55 subfamily member 3 (MPP3 protein) (Dlgh3 protein) 6.2 64471 -0.55 Q9JLB0 MAGUK p55 subfamily member 6 (Protein associated with Lin-7 2) 6.4 62630 -0.36 P14152 Malate dehydrogenase, cytoplasmic (EC 1.1.1.37) 6.5 36345 -0.06

9 P08249 Malate dehydrogenase, mitochondrial precursor (EC 1.1.1.37) 8.7 35596 0.14 P28667 MARCKS-related protein 4.3 20034 -1.21 Q8K310 Matrin 3 6.2 94630 -0.93 O55022 Membrane associated progesterone receptor component 1 4.3 21562 -0.62 Q8VHK5 Membrane protein MLC1 8 41595 0.4 P97772 Metabotropic glutamate receptor 1 precursor (mGluR1) 6.8 133211 -0.12 P02802 Metallothionein-I (MT-I) 8 6018 0.14 Q8R1S4 Metastasis suppressor protein 1 (Missing in metastasis protein) 6.8 82407 -0.68 P47802 Metaxin 1 6.1 35623 -0.22 Q9Z2D6 Methyl-CpG-binding protein 2 (MeCP-2 protein) (MeCP2) 10.7 52307 -1.08 Q99MR8 Methylcrotonoyl-CoA carboxylase alpha chain, mitochondrial precursor 7.9 79343 -0.29 Q9JLZ3 Methylglutaconyl-CoA hydratase, mitochondrial precursor (EC 4.2.1.18) 10.1 33394 0.02 Q9CQU1 Microfibrillar-associated protein 1 4.6 51954 -1.38 Q9QXZ0 Microtubule-actin crosslinking factor 1 (Actin cross-linking family 7) 5.2 607975 -0.65 Q9QYR6 Microtubule-associated protein 1A (MAP 1A) (Fragment) 5.6 113064 -0.68 P14873 Microtubule-associated protein 1B (MAP 1B) (MAP1.2) 4.5 270410 -0.84 P20357 Microtubule-associated protein 2 (MAP 2) 4.5 198981 -0.8 P27546 Microtubule-associated protein 4 (MAP 4) 4.7 117675 -0.58 Q61166 Microtubule-associated protein RP/EB family member 1 4.9 29884 -0.43 Q8R001 Microtubule-associated protein RP/EB family member 2 5 36946 -0.78 Q6PER3 Microtubule-associated protein RP/EB family member 3 5.2 31966 -0.55 P10637 Microtubule-associated protein tau (Neurofibrillary tangle protein) 6.8 76112 -0.86 Q9CQV6 Microtubule-associated proteins 1A/1B light chain 3B precursor 8.9 14485 -0.41 Q9QXT0 MIR-interacting saposin-like protein precursor (Transmembrane protein 4) 4.7 20767 -0.49 Q9CQX8 Mitochondrial 28S ribosomal protein S36 (S36mt) (MRP-S36) 10.7 11100 -0.67 Q9CR62 Mitochondrial 2-oxoglutarate/malate carrier protein (OGCP) 10.5 34023 0.07 Q9D6M3 Mitochondrial glutamate carrier 1 (Glutamate/H(+) symporter 1) 9.4 34670 0.11 P62075 Mitochondrial import inner membrane translocase subunit TIM13 A 8.3 10457 -0.53 Q9CPQ3 Mitochondrial import receptor subunit TOM22 homolog 4 15536 -0.17 Q8CAQ8 Mitochondrial inner membrane protein (Mitofilin) 6.6 83899 -0.47 Q9CZW5 Mitochondrial precursor proteins import receptor 7.4 67520 -0.5 P63085 Mitogen-activated protein kinase 1 (EC 2.7.1.37) 7 41275 -0.29 Q63844 Mitogen-activated protein kinase 3 (EC 2.7.1.37) 6.6 43066 -0.29 O88653 Mitogen-activated protein kinase kinase 1 interacting protein 1 7.5 13552 0.22 Q9JM52 Mitogen-activated protein kinase kinase kinase kinase 6 (EC 2.7.1.37) 7.5 147323 -0.81 P26041 Moesin (Membrane-organizing extension spike protein) 6.6 67635 -0.98 P53986 Monocarboxylate transporter 1 (MCT 1) 7.5 53267 0.37 Q9DCL9 Multifunctional protein ADE2 7.3 46938 -0.21 O08539 Myc box dependent interacting protein 1 (Bridging integrator 1) - 4.7 64469 -0.65 P04370 Myelin basic protein (MBP) (Myelin A1 protein) 10.3 27167 -1.2 P60202 Myelin proteolipid protein (PLP) (Lipophilin) 8.4 29945 0.55 P20917 Myelin-associated glycoprotein precursor (Siglec-4a) 4.8 69259 -0.12 Q61885 Myelin-oligodendrocyte glycoprotein precursor 8.1 28270 0.09 O08638 Myosin heavy chain, smooth muscle isoform (SMMHC) 5.1 227027 -0.84 Q60605 Myosin light polypeptide 6 (Myosin light chain alkali 3) (Myosin light chain 3) ( 4.3 16798 -0.4 Q9CQ19 Myosin regulatory light chain 2, smooth muscle isoform (Myosin RLC) 4.5 19722 -0.83 Q99104 Myosin Va (Myosin 5A) (Dilute myosin heavy chain, non-muscle) 8.9 215594 -0.57 Q64331 Myosin VI 9.2 146408 -0.68 P62774 Myotrophin (V-1 protein) (Granule cell differentiation protein) 5.2 12729 -0.24 P26645 Myristoylated alanine-rich C-kinase substrate (MARCKS) 4 29530 -0.86 Q8VDQ8 NAD-dependent deacetylase 2 (EC 3.5.1.-) (SIR2-like protein 2) 5 43256 -0.41 Q9CPP6 NADH-ubiquinone oxidoreductase 13 kDa-B subunit (EC 1.6.5.3) 8.5 13228 -0.43 Q99LY9 NADH-ubiquinone oxidoreductase 15 kDa subunit (EC 1.6.5.3) (EC 1.6.99.3) 9.3 12516 -1.03 Q9CXZ1 NADH-ubiquinone oxidoreductase 18 kDa subunit, mitochondrial precursor 10.7 19784 -0.55 Q9DCJ5 NADH-ubiquinone oxidoreductase 19 kDa subunit (EC 1.6.5.3) (EC 1.6.99.3) 8.6 19860 -0.63 Q9DC70 NADH-ubiquinone oxidoreductase 20 kDa subunit, mitochondrial precursor 10.3 24682 -0.06 Q8K3J1 NADH-ubiquinone oxidoreductase 23 kDa subunit, mitochondrial precursor 6.1 24038 -0.46 Q9D6J6 NADH-ubiquinone oxidoreductase 24 kDa subunit, mitochondrial precursor 7.5 27315 -0.31 Q9DCT2 NADH-ubiquinone oxidoreductase 30 kDa subunit, mitochondrial precursor 1. 6.9 30207 -0.36 Q9DC69 NADH-ubiquinone oxidoreductase 39 kDa subunit, mitochondrial precursor 10.3 42509 -0.09 Q99LC3 NADH-ubiquinone oxidoreductase 42 kDa subunit, mitochondrial precursor 7.9 40603 -0.43 Q91WD5 NADH-ubiquinone oxidoreductase 49 kDa subunit, mitochondrial precursor 7 52625 -0.28

10 Q91YT0 NADH-ubiquinone oxidoreductase 51 kDa subunit, mitochondrial precursor 8.3 50834 -0.25 Q91VD9 NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial precursor 5.4 79748 -0.12 Q9D6J5 NADH-ubiquinone oxidoreductase ASHI subunit, mitochondrial precursor 6.6 21875 -0.68 Q9CQZ5 NADH-ubiquinone oxidoreductase B14 subunit (EC 1.6.5.3) (EC 1.6.99.3) 10.8 15282 -0.52 Q9CQC7 NADH-ubiquinone oxidoreductase B15 subunit (EC 1.6.5.3) (EC 1.6.99.3) 10.3 14950 -0.69 Q9CR61 NADH-ubiquinone oxidoreductase B18 subunit (EC 1.6.5.3) (EC 1.6.99.3) 8.3 16199 -0.92 Q9CQJ8 NADH-ubiquinone oxidoreductase B22 subunit (EC 1.6.5.3) (EC 1.6.99.3) 7.9 21852 -1.06 Q9CQ75 NADH-ubiquinone oxidoreductase B8 subunit (EC 1.6.5.3) (EC 1.6.99.3) 10.6 10784 -0.23 Q9CQ91 NADH-ubiquinone oxidoreductase B9 subunit (EC 1.6.5.3) (EC 1.6.99.3) 8.9 9330 -0.02 P03899 NADH-ubiquinone oxidoreductase chain 3 (EC 1.6.5.3) 4.3 13218 0.86 P03911 NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) 9.7 51881 0.77 P03921 NADH-ubiquinone oxidoreductase chain 5 (EC 1.6.5.3) 9.4 68440 0.67 O09111 NADH-ubiquinone oxidoreductase ESSS subunit, mitochondrial precursor 4.9 17443 -0.47 Q62425 NADH-ubiquinone oxidoreductase MLRQ subunit (EC 1.6.5.3) (EC 1.6.99.3) 10 9326 -0.41 Q9DCS9 NADH-ubiquinone oxidoreductase PDSW subunit (EC 1.6.5.3) (EC 1.6.99.3) 8.2 20892 -1.01 Q9CQH3 NADH-ubiquinone oxidoreductase SGDH subunit, mitochondrial precursor 9.8 21710 -0.29 Q9Z1P6 NADH-ubiquinone oxidoreductase subunit B14.5a (EC 1.6.5.3) (EC 1.6.99.3) 10.8 12444 -0.7 Q9CQ54 NADH-ubiquinone oxidoreductase subunit B14.5b (EC 1.6.5.3) (EC 1.6.99.3) 9.5 14163 -0.39 Q7TMF3 NADH-ubiquinone oxidoreductase subunit B17.2 (EC 1.6.5.3) (EC 1.6.99.3) ( 9.8 17086 -0.78 P06801 NADP-dependent malic (EC 1.1.1.40) (NADP-ME) (Malic enzyme 1) 7.5 63998 -0.2 P28660 Nck-associated protein 1 (NAP 1) (p125Nap1) 6.8 74506 -0.18 Q62433 NDRG1 protein (N-myc downstream regulated gene 1 protein) (Protein Ndr1) 6 43008 -0.32 Q9QYG0 NDRG2 protein (Ndr2 protein) 5.1 40789 -0.27 Q9QYF9 NDRG3 protein (Ndr3 protein) 4.9 41554 -0.26 P13594 Neural cell adhesion molecule 1, 120 kDa isoform precursor (N-CAM 120) 4.5 80295 -0.36 P13595 Neural cell adhesion molecule 1, 180 kDa isoform precursor (N-CAM 180) 4.5 119350 -0.41 P11627 Neural cell adhesion molecule L1 precursor (N-CAM L1) 5.8 140968 -0.49 Q810U3 Neurofascin precursor 6.1 137974 -0.5 P19246 Neurofilament triplet H protein (200 kDa neurofilament protein) 5.4 116612 -1.1 P08551 Neurofilament triplet L protein (68 kDa neurofilament protein) 4.3 61448 -0.94 P08553 Neurofilament triplet M protein (160 kDa neurofilament protein) 4.4 95909 -1.19 P06837 Neuromodulin (Axonal membrane protein GAP-43) 4.4 23632 -1.29 P84075 Neuron specific calcium-binding protein hippocalcin 4.6 22296 -0.57 Q810U4 Neuronal cell adhesion molecule precursor (Nr-CAM) 5.7 138521 -0.4 Q80Z24 Neuronal growth regulator 1 precursor (Neurotractin) 6.5 37900 -0.06 P35802 Neuronal membrane glycoprotein M6-a (M6a) 4.9 31149 0.44 P35803 Neuronal membrane glycoprotein M6-b (M6b) 6.1 36209 0.19 Q62443 Neuronal pentraxin-1 precursor (NP1) (Neuronal pentraxin I) (NP-I) 6.4 47117 -0.4 Q9Z1S5 Neuronal-specific septin 3 7.5 52791 -0.07 Q99PJ0 Neurotrimin precursor 7.9 37984 -0.1 Q8BHN3 Neutral alpha-glucosidase AB precursor (EC 3.2.1.84) 6 106910 -0.32 O35874 Neutral amino acid transporter A (SATT) 5.7 56061 0.52 Q9CWS0 NG,NG-dimethylarginine dimethylaminohydrolase 1 (EC 3.5.3.18) 5.8 31249 -0.21 Q99LD8 NG,NG-dimethylarginine dimethylaminohydrolase 2 (EC 3.5.3.18) 5.9 29645 -0.01 O55125 NipSnap1 protein 9.9 33363 -0.63 O55126 NipSnap2 protein (Glioblastoma amplified sequence) 9.6 32932 -0.55 Q9Z0J4 Nitric-oxide synthase, brain (EC 1.14.13.39) (NOS, type I) (Neuronal NOS) 7.2 160471 -0.46 Q9CZ44 NSFL1 p47 (p97 cofactor p47) 4.8 40709 -0.64 Q9CSN1 Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) 10.1 61475 -1.13 Q80XU3 Nuclear ubiquitous casein and cyclin-dependent kinases substrate (JC7) 4.7 26313 -1.9 P62960 Nuclease sensitive element binding protein 1 (Y-box binding protein-1) 10.3 35729 -1.48 Q02819 Nucleobindin 1 precursor (CALNUC) 4.7 53408 -1.03 Q9D1X0 Nucleolar protein 3 3.7 24567 -1.21 P09405 Nucleolin (Protein C23) 4.4 76591 -1.1 Q61937 Nucleophosmin (NPM) (Nucleolar phosphoprotein B23) (Numatrin) 4.4 32559 -1 P15532 Nucleoside diphosphate kinase A (EC 2.7.4.6) (NDK A) (NDP kinase A) 7.5 17207 -0.28 Q01768 Nucleoside diphosphate kinase B (EC 2.7.4.6) (NDK B) (NDP kinase B) 7.6 17363 -0.29 P28656 Nucleosome assembly protein 1-like 1 (NAP-1 related protein) 4.1 45344 -0.96 Q9JL35 Nucleosome binding protein 1 (Nucleosome binding protein 45) (NBP-45) 4 45343 -1.92 P46978 Oligosaccharyl transferase STT3 subunit homolog (B5) 8.2 80597 0.23 P29758 Ornithine aminotransferase, mitochondrial precursor (EC 2.6.1.13) 6.6 48354 -0.14 Q8BJI1 Orphan sodium- and chloride-dependent neurotransmitter transporter NTT4 6.2 81071 0.31

11 Q9QWI6 p130Cas-associated protein (p140Cap) (SNAP-25-interacting protein) (SNIP) 9.8 134858 -0.69 Q9Z0P4 Paralemmin 4.5 41614 -0.81 Q9D0J8 Parathymosin 3.9 11298 -2.07 P32848 Parvalbumin alpha 4.8 11799 -0.38 Q9D6Y7 Peptide methionine sulfoxide reductase (EC 1.8.4.6) 8.6 25988 -0.51 P17742 Peptidyl-prolyl cis-trans isomerase A (EC 5.2.1.8) (PPIase) (Rotamase) 8.1 17840 -0.4 P24369 Peptidyl-prolyl cis-trans isomerase B precursor (EC 5.2.1.8) (PPIase) 10.2 22713 -0.15 Q9QUR7 Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (EC 5.2.1.8) 9.2 18370 -0.84 O70589 Peripheral plasma membrane protein CASK (EC 2.7.1.-) 6.6 104713 -0.42 P35700 Peroxiredoxin 1 (EC 1.11.1.-) (Thioredoxin peroxidase 2) 8.3 22176 -0.22 Q61171 Peroxiredoxin 2 (EC 1.11.1.-) (Thioredoxin peroxidase 1) 5 21778 -0.15 P99029 Peroxiredoxin 5, mitochondrial precursor (Prx-V) 9.1 21897 0.18 O08709 Peroxiredoxin 6 (EC 1.11.1.-) (Antioxidant protein 2) (1-Cys peroxiredoxin) 5.8 24739 -0.26 P51660 Peroxisomal multifunctional enzyme type 2 (MFE-2) (D-bifunctional protein) 8.8 79523 -0.11 Q8VEM8 Phosphate carrier protein, mitochondrial precursor (PTP) 9.6 39632 0.05 P70296 Phosphatidylethanolamine-binding protein (PEBP) (HCNPpp) 5 20699 -0.53 P53810 Phosphatidylinositol transfer protein alpha isoform 6.3 31762 -0.75 Q9CYR6 Phosphoacetylglucosamine mutase (EC 5.4.2.3) (PAGM) 6.1 59452 -0.15 Q8BH04 Phosphoenolpyruvate carboxykinase, mitochondrial precursor [GTP] 7.3 70527 -0.23 Q9D0F9 Phosphoglucomutase (EC 5.4.2.2) (Glucose phosphomutase) (PGM) 6.7 61385 -0.12 P09411 Phosphoglycerate kinase 1 (EC 2.7.2.3) 7.8 44405 -0.1 Q9DBJ1 Phosphoglycerate mutase 1 (EC 5.4.2.1) (EC 5.4.2.4) (EC 3.1.3.13) 7.2 28700 -0.5 P27612 Phospholipase A-2-activating protein (PLAP) 5.8 71416 -0.28 O70325 Phospholipid hydroperoxide glutathione peroxidase, mitochondrial precursor 8.5 22181 -0.24 Q91XR9 Phospholipid hydroperoxide glutathione peroxidase, nuclear (EC 1.11.1.12) 10.7 29204 -0.89 Q99K85 aminotransferase (EC 2.6.1.52) (PSAT) 8.2 40472 -0.01 Q8K0S0 Phytanoyl-CoA hydroxylase interacting protein 7 37554 -0.38 Q9QYX7 Piccolo protein (Presynaptic cytomatrix protein) (Aczonin) 6.4 547612 -0.78 Q9CY58 Plasminogen activator inhibitor 1 RNA-binding protein 9 44713 -1.27 P63005 Platelet-activating factor acetylhydrolase IB alpha subunit 7.4 46538 -0.52 Q61206 Platelet-activating factor acetylhydrolase IB beta subunit (EC 3.1.1.47) 6.2 25492 -0.24 Q9QXS1 Plectin 1 (PLTN) (PCN) (Fragment) 8.3 111661 -0.6 P60335 Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1) 7.1 37497 -0.11 Q61990 Poly(rC)-binding protein 2 (Alpha-CP2) 6.8 38221 -0.13 P57722 Poly(rC)-binding protein 3 (Alpha-CP3) 8.2 35908 -0.16 P29341 Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP 1) 10 70642 -0.51 Q6WVG3 Potassium channel tetramerisation domain containing protein 12 (Pfetin) 5.5 35891 -0.53 P16388 Potassium voltage-gated channel subfamily A member 1 4.8 56409 -0.07 P63141 Potassium voltage-gated channel subfamily A member 2 4.5 56700 -0.04 P15388 Potassium voltage-gated channel subfamily C member 1 6.6 57928 -0.11 Q63959 Potassium voltage-gated channel subfamily C member 3 7 82115 -0.13 Q9Z0V2 Potassium voltage-gated channel subfamily D member 2 8.1 70576 -0.14 O88704 Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated 8.5 102431 -0.38 P70704 Potential phospholipid-transporting ATPase IA (EC 3.6.3.1) 7.3 129766 -0.01 P61759 Prefoldin subunit 3 (Von Hippel-Lindau binding protein 1) 7.3 21448 -0.72 Q62108 Presynaptic density protein 95 (PSD-95) (Presynaptic protein SAP90) 5.7 80472 -0.46 Q811D0 Presynaptic protein SAP97 (Synapse-associated protein 97) (SAP-97) 5.6 100119 -0.49 Q91VC3 Probable ATP-dependent helicase DDX48 (DEAD-box protein 48) 6.7 46839 -0.26 P54823 Probable ATP-dependent RNA helicase p54 (Oncogene RCK homolog) 8.9 54191 -0.29 Q8C522 Probable endonuclease KIAA0830 precursor (EC 3.1.30.-) 6.1 55262 0.17 Q9QYA2 Probable mitochondrial import receptor subunit TOM40 homolog 8.6 38001 -0.14 Q80TB8 Probable oxidoreductase KIAA1576 (EC 1.-.-.-) 4.7 45817 -0.22 Q61656 Probable RNA-dependent helicase p68 (DEAD-box protein p68) 9.2 69320 -0.66 P70398 Probable ubiquitin carboxyl-terminal hydrolase FAF-X (EC 3.1.2.15) 5.9 290544 -0.35 P62962 Profilin-1 (Profilin I) 8.5 14825 0.02 Q9JJV2 Profilin-2 (Profilin II) 7 14900 -0.04 P12815 Programmed cell death protein 6 (Probable calcium-binding protein ALG-2) 5 21867 -0.43 P67778 Prohibitin (B-cell receptor associated protein 32) (BAP 32) 5.5 29820 0.01 P50580 Proliferation-associated protein 2G4 (Proliferation-associated protein 1) 6.9 43698 -0.48 Q9Z2Y8 Proline synthetase co-transcribed bacterial homolog protein 8.5 30048 -0.26 P97371 Proteasome activator complex subunit 1 (Proteasome activator 28-alpha 5.8 28672 -0.69 Q9R1P4 Proteasome subunit alpha type 1 (EC 3.4.25.1) (Proteasome component C2) 6.4 29546 -0.43

12 P49722 Proteasome subunit alpha type 2 (EC 3.4.25.1) (Proteasome component C3) 8.6 25794 -0.2 O70435 Proteasome subunit alpha type 3 (EC 3.4.25.1) (Proteasome component C8) 5.1 28273 -0.3 Q9R1P0 Proteasome subunit alpha type 4 (EC 3.4.25.1) (Proteasome component C9) 7.9 29470 -0.45 Q9Z2U1 Proteasome subunit alpha type 5 (EC 3.4.25.1) (Proteasome zeta chain) 4.4 26410 -0.11 Q9QUM9 Proteasome subunit alpha type 6 (EC 3.4.25.1) (Proteasome iota chain) 6.7 27372 -0.17 O09061 Proteasome subunit beta type 1 (EC 3.4.25.1) (Proteasome component C5) 8 26372 -0.15 Q9R1P3 Proteasome subunit beta type 2 (EC 3.4.25.1) (Proteasome component C7-I) 7 22906 -0.18 Q9R1P1 Proteasome subunit beta type 3 (EC 3.4.25.1) (Proteasome theta chain) 6.5 22964 0.02 P99026 Proteasome subunit beta type 4 precursor (EC 3.4.25.1) 5.4 29116 -0.17 O55234 Proteasome subunit beta type 5 precursor (EC 3.4.25.1) 8.7 22967 -0.11 Q9Z1Q2 Protein BAT5 (HLA-B-associated transcript 5) (NG26 protein) 8.3 63085 -0.2 Q9D8B3 Protein C20orf178 homolog 4.5 24936 -0.81 Q99LR1 Protein C20orf22 homolog 8.9 45269 -0.3 Q9CRB6 Protein CGI-38 homolog 9.7 18965 -0.63 P27773 Protein disulfide-isomerase A3 precursor (EC 5.3.4.1) 6.3 56621 -0.48 P08003 Protein disulfide-isomerase A4 precursor (EC 5.3.4.1) (Protein ERp-72) 4.9 71973 -0.53 P09103 Protein disulfide-isomerase precursor (EC 5.3.4.1) (PDI) 4.5 57143 -0.39 Q921M7 Protein FAM49B 5.9 36775 -0.38 Q9CY57 Protein HT031 homolog 12.7 26584 -0.72 Q8R0A7 Protein KIAA0513 4.7 46318 -0.9 Q61644 Protein kinase C and casein kinase substrate in neurons protein 1 4.9 50575 -1.04 P68404 Protein kinase C, beta type (EC 2.7.1.37) (PKC-beta) (PKC-B) 7 76893 -0.5 P63318 Protein kinase C, gamma type (EC 2.7.1.37) (PKC-gamma) 7.5 78357 -0.35 P58389 Protein phosphatase 2A, regulatory subunit B' (PP2A, subunit B', PR53 6.4 36710 -0.24 P36993 Protein phosphatase 2C beta isoform (EC 3.1.3.16) (PP2C-beta) (IA) 4.8 42794 -0.39 Q9DCL8 Protein phosphatase inhibitor 2 (IPP-2) 4.5 22988 -1.2 P23506 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (EC 2.1.1.77) 7.8 24503 -0.2 P26350 Prothymosin alpha 3.4 12122 -1.99 Q64010 Proto-oncogene C-crk (P38) (Adapter molecule crk) 5.2 33814 -0.65 P12660 Purkinje cell protein 2 (Protein PCD-5) (Purkinje cell-specific protein L7) 5 10752 -0.99 Q11011 Puromycin-sensitive aminopeptidase (EC 3.4.11.-) (PSA) 5.7 103351 -0.21 P16381 Putative ATP-dependent RNA helicase PL10 7.2 73140 -0.62 Q9CZ30 Putative GTP-binding protein PTD004 homolog 8 44729 -0.4 Q7TNC4 Putative RNA-binding protein Luc7-like 2 (CGI-74 homolog) 10.8 46582 -1.51 Q8K183 Pyridoxal kinase (EC 2.7.1.35) (Pyridoxine kinase) 6.2 35015 -0.24 P60487 phosphatase (EC 3.1.3.-) 5.4 31511 -0.08 Q05920 Pyruvate carboxylase, mitochondrial precursor (EC 6.4.1.1) 6.7 129684 -0.17 P35486 Pyruvate dehydrogenase E1 component alpha subunit, somatic form, 8.3 43231 -0.29 Q9D051 Pyruvate dehydrogenase E1 component beta subunit, mitochondrial 6.9 38936 0.06 Q8BKZ9 Pyruvate dehydrogenase protein X component, mitochondrial precursor 7.9 53998 -0.24 P52480 Pyruvate kinase, isozyme M2 (EC 2.7.1.40) 7.5 57755 -0.09 P50396 Rab GDP dissociation inhibitor alpha (Rab GDI alpha) (GDI-1) 4.7 50521 -0.31 Q61598 Rab GDP dissociation inhibitor beta-2 (Rab GDI beta-2) (GDI-3) 6.1 50536 -0.3 P47708 Rabphilin-3A (Exophilin 1) 8.4 75488 -0.84 P26043 Radixin (ESP10) 6 68600 -1.01 P34022 Ran-specific GTPase-activating protein (Ran binding protein 1) (RANBP1) 4.9 23596 -1.13 Q9EQZ6 Rap guanine nucleotide exchange factor 4 6.9 115491 -0.34 P97379 Ras-GTPase-activating protein binding protein 2 5.3 54087 -0.98 P63001 Ras-related C3 botulinum toxin substrate 1 (p21-Rac1) 8.6 21450 -0.1 P60764 Ras-related C3 botulinum toxin substrate 3 (p21-Rac3) 8.3 21378 -0.1 P61027 Ras-related protein Rab-10 8.6 22540 -0.33 P46638 Ras-related protein Rab-11B 5.7 24489 -0.43 Q91V41 Ras-related protein Rab-14 6.1 23896 -0.4 P62821 Ras-related protein Rab-1A (YPT1-related protein) 6 22677 -0.29 Q9D1G1 Ras-related protein Rab-1B 5.4 22187 -0.31 P53994 Ras-related protein Rab-2A 6.5 23547 -0.37 P59279 Ras-related protein Rab-2B 6.7 24198 -0.35 P63011 Ras-related protein Rab-3A 4.6 24969 -0.49 Q9CQD1 Ras-related protein Rab-5A 8.3 23598 -0.4 P61021 Ras-related protein Rab-5B 8.3 23706 -0.38 P35278 Ras-related protein Rab-5C 8.6 23412 -0.3 P51150 Ras-related protein Rab-7 6.6 23489 -0.38

13 P63321 Ras-related protein Ral-A 7.2 23552 -0.62 Q99JI6 Ras-related protein Rap-1b (GTP-binding protein smg p21B) 5.4 20824 -0.39 P10833 Ras-related protein R-Ras (P23) 6.8 23763 -0.4 O54829 Regulator of G-protein signaling 7 (RGS7) 8.1 54722 -0.75 Q8K0T0 Reticulon 1 4.2 83572 -0.4 Q99P72 Reticulon 4 (Neurite outgrowth inhibitor) (Nogo protein) 9.9 22466 0.34 P24549 Retinal dehydrogenase 1 (EC 1.2.1.36) (RalDH1) (RALDH 1) 7.9 54336 -0.12 Q99PT1 Rho GDP-dissociation inhibitor 1 (Rho GDI 1) (Rho-GDI alpha) (GDI-1) 4.8 23407 -0.73 P70336 Rho-associated protein kinase 2 (EC 2.7.1.37) 5.8 160585 -0.84 P62746 Rho-related GTP-binding protein RhoB 4.9 22123 -0.26 P84096 Rho-related GTP-binding protein RhoG (Sid 10750) 8.2 21308 -0.21 P52760 Ribonuclease UK114 (EC 3.1.-.-) (Heat-responsive protein 12) 9 14124 0.12 P18653 Ribosomal protein S6 kinase alpha 1 (EC 2.7.1.37) (S6K-alpha 1) 8.3 81594 -0.37 Q9CWZ3 RNA-binding protein 8A (RNA binding motif protein 8A) 5.4 19888 -1.15 P56959 RNA-binding protein FUS (Pigpen protein) 9.6 52673 -1.32 P97352 S100 calcium-binding protein A13 5.9 11157 -0.45 P56565 S-100 protein, alpha chain (S100 calcium-binding protein A1) 4.1 10373 -0.35 P50114 S-100 protein, beta chain 4.2 10596 -0.52 O55143 Sarcoplasmic/endoplasmic reticulum calcium ATPase 2 (EC 3.6.3.8) 5 114857 0.09 Q64518 Sarcoplasmic/endoplasmic reticulum calcium ATPase 3 (EC 3.6.3.8) 5.6 113607 0.04 Q9DAR7 Scavenger mRNA decapping enzyme DcpS (EC 3.-.-.-) (DCS-1) 6.5 38988 -0.56 Q9D1M0 SEC13-related protein (SEC13-like protein 1) 5 35434 -0.38 Q9CZC8 Secernin 1 4.4 46325 -0.42 Q8K021 Secretory carrier-associated membrane protein 1 7.8 38028 -0.07 Q64105 Sepiapterin reductase (EC 1.1.1.153) (SPR) 5.4 27882 -0.01 Q8C1B7 Septin 11 6.7 49694 -0.7 P42208 Septin 2 (NEDD5 protein) 6.5 41525 -0.52 P28661 Septin 4 (Peanut-like protein 2) (Brain protein H5) 5.7 54935 -0.74 Q9Z2Q6 Septin 5 (Peanut-like protein 1) (Cell division control related protein 1) 6.5 40240 -0.56 Q9R1T4 Septin 6 6.4 49619 -0.62 O55131 Septin 7 (CDC10 protein homolog) 8.9 50549 -0.79 Q8CHH9 Septin 8 5.9 49812 -0.68 Q76MZ3 /threonine protein phosphatase 2A, 65 kDa regulatory subunit A, alpha 4.7 65191 0.07 P63330 Serine/threonine protein phosphatase 2A, catalytic subunit, alpha isoform 5.2 35608 -0.43 P63328 Serine/threonine protein phosphatase 2B catalytic subunit, alpha isoform 5.7 58643 -0.31 P48453 Serine/threonine protein phosphatase 2B catalytic subunit, beta isoform 5.8 59173 -0.29 Q60676 Serine/threonine protein phosphatase 5 (EC 3.1.3.16) (PP5) 6.1 56846 -0.5 P62141 Serine/threonine protein phosphatase PP1-beta catalytic subunit 6.1 37186 -0.24 Q9JLM8 Serine/threonine-protein kinase DCAMKL1 (EC 2.7.1.37) 9.2 84152 -0.52 O88643 Serine/threonine-protein kinase PAK 1 (EC 2.7.1.37) (p21-activated kinase 1) 5.5 60736 -0.61 Q9Z1Z2 Serine-threonine kinase receptor-associated protein (UNR-interacting protein) 4.8 38513 -0.33 Q921I1 Serotransferrin precursor (Transferrin) (Siderophilin) (Beta-1-metal binding 7.2 76723 -0.27 P07724 Serum albumin precursor 6 68692 -0.38 P26638 Seryl-tRNA synthetase (EC 6.1.1.11) (Serine--tRNA ligase) (SerRS) 6.2 58257 -0.52 Q9EQU5 SET protein (Phosphatase 2A inhibitor I2PP2A) (I-2PP2A) 3.9 33377 -1.29 Q8R3V5 SH3 domain GRB2-like protein B2 (Endophilin B2) 5.8 44115 -0.41 Q91VW3 SH3 domain-binding glutamic acid-rich-like protein 3 4.8 10476 -0.52 Q62419 SH3-containing GRB2-like protein 1 (SH3 domain protein 2B) (SH3p8) 5.4 41518 -0.69 Q62420 SH3-containing GRB2-like protein 2 (EC 2.3.1.-) (SH3 domain protein 2A) 5.1 39877 -0.68 Q91V61 Sideroflexin 3 9.9 35406 0.08 Q925N0 Sideroflexin 5 9.9 37328 0.19 P97447 Skeletal muscle LIM-protein 1 (SLIM 1) 8.4 31888 -0.48 P62317 Small nuclear ribonucleoprotein Sm D2 (snRNP core protein D2) (Sm-D2) 10.7 13526 -0.71 P31648 Sodium- and chloride-dependent GABA transporter 1 8 67001 0.47 P28571 Sodium- and chloride-dependent glycine transporter 1 (GlyT1) (GlyT-1) 8.2 70775 0.44 P70414 Sodium/calcium exchanger 1 precursor (Na(+)/Ca(2+)-exchange protein 1) 4.6 108035 0.03 Q8VDN2 Sodium/potassium-transporting ATPase alpha-1 chain precursor (EC 3.6.3.9) 5.1 112981 0 Q6PIC6 Sodium/potassium-transporting ATPase alpha-3 chain (EC 3.6.3.9) 5.1 111691 -0.01 P14094 Sodium/potassium-transporting ATPase beta-1 chain 8.9 35194 -0.55 P14231 Sodium/potassium-transporting ATPase beta-2 chain 8.4 33344 -0.37 P97370 Sodium/potassium-transporting ATPase beta-3 chain 8.7 31775 -0.3 P55012 Solute carrier family 12, member 2 (Bumetanide-sensitive sodium- 7.2 130950 0.02

14 Q91V14 Solute carrier family 12, member 5 (Electroneutral potassium-chloride 6.2 123587 0 P17809 Solute carrier family 2, facilitated glucose transporter, member 1 9.1 53934 0.53 P32037 Solute carrier family 2, facilitated glucose transporter, member 3 4.6 53478 0.66 Q62417 Sorbin and SH3 domain-containing protein 1 (Ponsin) 8.4 143069 -0.83 O70493 Sorting nexin 12 (SDP8 protein) 7.4 19115 -0.66 P07214 SPARC precursor (Secreted protein acidic and rich in cysteine) (Osteonectin) 4.5 34449 -0.43 P70663 SPARC-like protein 1 precursor (Matrix glycoprotein Sc1) 4.2 72314 -1.09 P16546 Spectrin alpha chain, brain (Spectrin, non-erythroid alpha chain) 5.1 167552 -0.8 Q62261 Spectrin beta chain, brain 1 (Spectrin, non-erythroid beta chain 1) 5.8 274421 -0.77 P15508 Spectrin beta chain, erythrocyte (Beta-I spectrin) 5 245118 -0.65 Q9WTX5 S-phase kinase-associated protein 1A 4.2 18540 -0.73 Q9Z1N5 Spliceosome RNA helicase Bat1 (DEAD-box protein UAP56) 5.4 49035 -0.27 Q64213 Splicing factor 1 (Zinc finger protein 162) (Transcription factor ZFM1) (mZFM) 9 70407 -0.83 P26369 Splicing factor U2AF 65 kDa subunit (U2 auxiliary factor 65 kDa subunit) 9.5 53516 -0.58 Q62093 Splicing factor, arginine/serine-rich 2 (Splicing factor SC35) (SC-35) 12.4 25345 -1.64 P84104 Splicing factor, arginine/serine-rich 3 (Pre-mRNA splicing factor SRP20) 12.1 19329 -1.52 Q8VE97 Splicing factor, arginine/serine-rich 4 11.9 55979 -1.78 O35326 Splicing factor, arginine/serine-rich 5 (Pre-mRNA splicing factor SRP40) 11.9 30944 -1.24 Q60598 Src substrate cortactin 5 61259 -1.13 P54227 Stathmin (Phosphoprotein p19) (pp19) (Oncoprotein 18) (Op18) 5.8 17143 -1.33 P38647 Stress-70 protein, mitochondrial precursor (75 kDa glucose regulated protein) 6.1 73528 -0.39 Q60864 Stress-induced-phosphoprotein 1 (STI1) (Hsc70/Hsp90-organizing protein) 6.8 62581 -0.95 Q9ERG2 Striatin 3 (Cell-cycle autoantigen SG2NA) (S/G2 antigen) 4.9 87150 -0.53 P70302 Stromal interaction molecule 1 precursor 6.5 77582 -0.68 Q9CW03 Structural maintenance of chromosome 3 7.2 141555 -0.87 Q8K2B3 Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial 7.4 72585 -0.27 Q9CQA3 Succinate dehydrogenase [ubiquinone] iron-sulfur protein, mitochondrial 8.8 31813 -0.38 Q8BWF0 Succinate semialdehyde dehydrogenase, mitochondrial precursor 8.4 55968 -0.03 Q9Z2I9 Succinyl-CoA ligase [ADP-forming] beta-chain, mitochondrial precursor 7 50113 -0.02 Q9WUM5 Succinyl-CoA ligase [GDP-forming] alpha-chain, mitochondrial precursor 9.9 34994 -0.07 Q9D0K2 Succinyl-CoA:3-ketoacid-coenzyme A transferase 1, mitochondrial precursor 8.8 55988 -0.11 Q61207 Sulfated glycoprotein 1 precursor (SGP-1) (Prosaposin) 4.8 61421 -0.08 P63046 Sulfotransferase 4A1 (EC 2.8.2.-) (Brain sulfotransferase-like protein) 5.2 33053 -0.34 P08228 Superoxide dismutase [Cu-Zn] (EC 1.15.1.1) 6.5 15811 -0.47 P09671 Superoxide dismutase [Mn], mitochondrial precursor (EC 1.15.1.1) 8.8 24602 -0.44 Q6PDG5 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin 5.3 132603 -0.74 O88935 Synapsin-1 (Synapsin I) 10.4 70034 -0.59 Q8JZP2 Synapsin-3 (Synapsin III) 9.8 63344 -0.54 Q62465 Synaptic vesicle membrane protein VAT-1 homolog 6.3 43096 -0.04 O55100 Synaptogyrin-1 4.3 25652 0 Q8R191 Synaptogyrin-3 8.3 24560 0.28 Q8CHC4 Synaptojanin 1 (EC 3.1.3.36) 6.9 172616 -0.4 Q62277 Synaptophysin (Major synaptic vesicle protein p38) (BM89 antigen) 4.6 34024 -0.05 P60879 Synaptosomal-associated protein 25 (SNAP-25) 4.4 23315 -0.87 P46096 Synaptotagmin-1 (Synaptotagmin I) (SytI) (p65) 8.9 47417 -0.42 Q920N7 Synaptotagmin-12 (Synaptotagmin XII) (SytXII) 5.3 46679 -0.19 P46097 Synaptotagmin-2 (Synaptotagmin II) (SytII) 8.1 47262 -0.52 O08599 Syntaxin binding protein 1 (Unc-18 homolog) (Unc-18A) (Unc-18-1) 7 67568 -0.41 P61264 Syntaxin-1B2 (Syntaxin 1B) 5 33244 -0.69 O70439 Syntaxin-7 5.5 29689 -0.6 Q9DCP2 System N amino acid transporter 1 (SN1) 7.1 55591 0.56 P26039 Talin 1 6 269832 -0.24 Q921F2 TAR DNA-binding protein-43 (TDP-43) 6.7 44547 -0.5 P11983 T-complex protein 1, alpha subunit B (TCP-1-alpha) (CCT-alpha) 6.1 60448 -0.04 P80314 T-complex protein 1, beta subunit (TCP-1-beta) (CCT-beta) 6.4 57345 0 P80316 T-complex protein 1, epsilon subunit (TCP-1-epsilon) (CCT-epsilon) 5.9 59623 -0.17 P80313 T-complex protein 1, eta subunit (TCP-1-eta) (CCT-eta) 7.9 59652 -0.09 P80318 T-complex protein 1, gamma subunit (TCP-1-gamma) (CCT-gamma) 6.7 60629 -0.26 P42932 T-complex protein 1, theta subunit (TCP-1-theta) (CCT-theta) 5.3 59424 -0.08 P80317 T-complex protein 1, zeta subunit (TCP-1-zeta) (CCT-zeta) (CCT-zeta-1) 7.1 57872 -0.09 Q9R0Q7 Telomerase-binding protein p23 (Hsp90 co-chaperone) 4.1 18721 -1.05 Q8BYI9 Tenascin-R precursor (TN-R) (Restrictin) (Janusin) 4.6 149563 -0.31

15 Q9CQ92 Tetratricopeptide repeat protein 11 (TPR repeat protein 11) (Fis1 homolog) 8.9 17008 -0.29 Q9CRD2 Tetratricopeptide repeat protein KIAA0103 6.8 34934 -0.72 P10639 Thioredoxin (ATL-derived factor) (ADF) 4.5 11544 -0.05 Q9D1Q6 Thioredoxin domain containing protein 4 precursor 4.9 46852 -0.43 Q9JMH6 Thioredoxin reductase 1, cytoplasmic (EC 1.8.1.9) (TR) (TR1) 6.3 54497 -0.16 P20108 Thioredoxin-dependent peroxide reductase, mitochondrial precursor 7.7 28126 0.02 Q8CDN6 Thioredoxin-like protein 1 (32 kDa thioredoxin-related protein) 4.6 32106 -0.45 P52196 Thiosulfate sulfurtransferase (EC 2.8.1.1) (Rhodanese) 8 33334 -0.42 O08583 THO complex subunit 4 (Tho4) (RNA and export factor binding protein 1) 11.7 26808 -0.86 P01831 Thy-1 membrane glycoprotein precursor (Thy-1 antigen) (CDw90) 9.3 18079 -0.03 P20065 Thymosin beta-4 (T beta 4) [Contains: Hematopoietic system regulatory 4.7 5679 -1.25 Q9Z0U1 Tight junction protein ZO-2 (Zonula occludens 2 protein) 6.7 131615 -0.9 Q93092 Transaldolase (EC 2.2.1.2) 7.1 37386 -0.29 P10711 Transcription elongation factor A protein 1 8.5 33880 -0.81 Q8CGF7 Transcription elongation regulator 1 9.1 123787 -0.86 Q62318 Transcription intermediary factor 1-beta (TIF1-beta) 5.5 88846 -0.41 P42669 Transcriptional activator protein PUR-alpha 6.4 34883 -0.76 P37804 Transgelin (Smooth muscle protein 22-alpha) (SM22-alpha) 9.2 22444 -0.62 Q9R1Q8 Transgelin-3 (Neuronal protein NP25) 7.4 22470 -0.57 Q01853 Transitional endoplasmic reticulum ATPase (TER ATPase) 4.9 89307 -0.35 P40142 Transketolase (EC 2.2.1.1) (TK) (P68) 7.5 67630 -0.15 P63028 Translationally controlled tumor protein (TCTP) (p23) (21 kDa polypeptide) 4.5 19462 -0.36 Q99JY0 Trifunctional enzyme beta subunit, mitochondrial precursor (TP-beta) 9.9 51386 -0.1 P17751 Triosephosphate isomerase (EC 5.3.1.1) (TIM) (Triose-phosphate isomerase) 7.4 26581 -0.11 Q9ESN6 Tripartite motif protein 2 (Neural activity-related RING finger protein) 7 81444 -0.33 Q9R1R2 Tripartite motif protein 3 (RING finger protein 22) (RING finger protein HAC1) 7.8 80774 -0.31 Q9JKK7 Tropomodulin-2 (Neuronal tropomodulin) (N-Tmod) 5.1 39509 -0.69 P58771 Tropomyosin 1 alpha chain (Alpha-tropomyosin) 4.4 32680 -1.04 P21107 Tropomyosin alpha 3 chain (Tropomyosin 3) (Tropomyosin gamma) 4.4 32862 -1.05 Q6IRU2 Tropomyosin alpha 4 chain (Tropomyosin 4) 4.3 28336 -1.03 P68369 Tubulin alpha-1 chain (Alpha-tubulin 1) (Alpha-tubulin isotype M-alpha-1) 4.7 50135 -0.23 P05213 Tubulin alpha-2 chain (Alpha-tubulin 2) (Alpha-tubulin isotype M-alpha-2) 4.7 50151 -0.23 P68368 Tubulin alpha-4 chain (Alpha-tubulin 4) (Alpha-tubulin isotype M-alpha-4) 4.7 49924 -0.25 Q9JJZ2 Tubulin alpha-8 chain (Alpha-tubulin 8) 4.7 50051 -0.21 P68372 Tubulin beta-chain 4.5 49830 -0.36 Q9ERD7 Tubulin beta-3 4.6 50418 -0.37 Q9D6F9 Tubulin beta-4 chain 4.5 49551 -0.32 P99024 Tubulin beta-5 chain 4.5 49670 -0.35 Q7TQD2 Tubulin polymerization-promoting protein (TPPP) 10.1 23574 -0.75 P97797 Tyrosine-protein phosphatase non-receptor type substrate 1 precursor 8.3 56424 -0.4 P35235 Tyrosine-protein phosphatase, non-receptor type 11 (EC 3.1.3.48) 7 66816 -0.68 Q62376 U1 small nuclear ribonucleoprotein 70 kDa (U1 SNRNP 70 kDa) (snRNP70) 10.7 43722 -1.92 Q6ZWM4 U6 snRNA-associated Sm-like protein LSm8 4.1 10271 0.05 Q922Y1 UBA/UBX 33.3 kDa protein 4.9 33572 -1.03 Q8R317 Ubiquilin 1 (Protein linking IAP with cytoskeleton-1) (PLIC-1) 4.6 61976 -0.49 Q9QZM0 Ubiquilin 2 (Protein linking IAP with cytoskeleton-2) (PLIC-2) 5 67378 -0.36 P99028 Ubiquinol-cytochrome c reductase complex 11 kDa protein, mitochondrial 4.5 10434 -0.99 Q9D855 Ubiquinol-cytochrome c reductase complex 14 kDa protein (EC 1.10.2.2) 9.6 13396 -1.07 Q8R1I1 Ubiquinol-cytochrome c reductase complex 7.2 kDa protein (EC 1.10.2.2) 9.6 7445 -0.34 Q9CQ69 Ubiquinol-cytochrome c reductase complex ubiquinone-binding protein QP-C 10.7 9637 -0.6 Q9CR68 Ubiquinol-cytochrome c reductase iron-sulfur subunit, mitochondrial precursor 8.9 29367 -0.07 Q9DB77 Ubiquinol-cytochrome-c reductase complex core protein 2, mitochondrial 9.7 48234 -0.06 Q9CZ13 Ubiquinol-cytochrome-c reductase complex core protein I, mitochondrial 6.1 52768 -0.19 P62991 Ubiquitin 7.5 8564 -0.49 P56399 Ubiquitin carboxyl-terminal hydrolase 5 (EC 3.1.2.15) 4.6 95833 -0.44 Q9R0P9 Ubiquitin carboxyl-terminal hydrolase isozyme L1 (EC 3.4.19.12) (UCH-L1) 4.9 24838 -0.32 Q9JKB1 Ubiquitin carboxyl-terminal hydrolase isozyme L3 (EC 3.4.19.12) (UCH-L3) 4.7 26151 -0.39 Q7TQI3 Ubiquitin thiolesterase protein OTUB1 (EC 3.4.-.-) (Otubain 1) 4.6 31269 -0.55 Q02053 Ubiquitin-activating enzyme E1 1 5.4 117808 -0.26 P68037 Ubiquitin-conjugating enzyme E2 L3 (EC 6.3.2.19) 8.8 17861 -0.75 P61089 Ubiquitin-conjugating enzyme E2 N (EC 6.3.2.19) (Ubiquitin-protein ligase N) 6.5 17137 -0.27 Q9D2M8 Ubiquitin-conjugating enzyme E2 variant 2 (Ubc-like protein MMS2) 8.4 16366 -0.56

16 Q9R1T2 Ubiquitin-like 1 activating enzyme E1A 5 38619 -0.28 Q9DBP5 UMP-CMP kinase (EC 2.7.4.14) (Cytidylate kinase) (Deoxycytidylate kinase) 5.5 22165 -0.56 Q91WS0 Uncharacterized hematopoietic stem/progenitor cells protein MDS029 9.5 12096 -0.37 Q91ZJ5 UTP--glucose-1-phosphate uridylyltransferase 2 (EC 2.7.7.9) 7.7 56847 -0.29 P54728 UV excision repair protein RAD23 homolog B (mHR23B) 4.5 43516 -0.39 P50516 Vacuolar ATP synthase catalytic subunit A, ubiquitous isoform (EC 3.6.3.14) 5.6 68267 -0.21 P62814 Vacuolar ATP synthase subunit B, brain isoform (EC 3.6.3.14) 5.5 56550 -0.18 Q9Z1G3 Vacuolar ATP synthase subunit C (EC 3.6.3.14) (V-ATPase C subunit) 6.8 43860 -0.29 P51863 Vacuolar ATP synthase subunit d (EC 3.6.3.14) (V-ATPase d subunit) 4.6 40300 -0.09 P57746 Vacuolar ATP synthase subunit D (EC 3.6.3.14) (V-ATPase D subunit) 10.1 28368 -0.44 P50518 Vacuolar ATP synthase subunit E (EC 3.6.3.14) (V-ATPase E subunit) 9.8 26587 -0.57 Q9WTT4 Vacuolar ATP synthase subunit G 2 (EC 3.6.3.14) (V-ATPase G subunit 2) 10.9 13651 -1.12 Q9R1Q9 Vacuolar ATP synthase subunit S1 precursor (EC 3.6.3.14) 5.8 51007 0.21 Q9EQH3 Vacuolar protein sorting 35 (Vesicle protein sorting 35) 5.1 91712 -0.31 P97390 Vacuolar protein sorting-associated protein 45 (mVps45) 8.4 65052 -0.3 Q9Z1G4 Vacuolar proton translocating ATPase 116 kDa subunit a isoform 1 6.7 96500 0.02 Q8R164 Valacyclovir hydrolase precursor (EC 3.1.-.-) (VACVase) 9.3 32850 -0.26 Q9Z1Q9 Valyl-tRNA synthetase 2 (EC 6.1.1.9) (Valine--tRNA ligase 2) (ValRS 2) 7.8 140215 -0.3 Q62059 Versican core protein precursor (Large fibroblast proteoglycan) 4.3 366942 -0.54 O08547 Vesicle trafficking protein SEC22b (SEC22 vesicle trafficking protein-like 1) 8.7 24740 -0.18 Q62442 Vesicle-associated membrane protein 1 (VAMP-1) (Synaptobrevin 1) 6.6 12889 -0.18 P63044 Vesicle-associated membrane protein 2 (VAMP-2) (Synaptobrevin 2) 8.5 12559 -0.01 Q9WV55 Vesicle-associated membrane protein-associated protein A 8.6 27279 -0.43 Q9QY76 Vesicle-associated membrane protein-associated protein B 8 26946 -0.3 P46460 Vesicle-fusing ATPase (EC 3.6.4.6) (Vesicular-fusion protein NSF) 6.9 82565 -0.21 O35633 Vesicular inhibitory amino acid transporter (GABA and glycine transporter) 6.6 57380 0.47 P20152 Vimentin 4.8 53556 -0.84 Q64727 Vinculin (Metavinculin) 5.8 116585 -0.42 P62761 Visinin-like protein 1 (VILIP) (Neural visinin-like protein 1) (NVL-1) (NVP-1) 4.8 22011 -0.51 Q60932 Voltage-dependent anion-selective channel protein 1 (VDAC-1) (mVDAC1) 8.7 32351 -0.33 Q60930 Voltage-dependent anion-selective channel protein 2 (VDAC-2) (mVDAC2) 7.6 31732 -0.22 Q60931 Voltage-dependent anion-selective channel protein 3 (VDAC-3) (mVDAC3) 9.1 30752 -0.32 O88342 WD-repeat protein 1 (Actin interacting protein 1) (AIP1) 6.6 66275 -0.27 Q11136 Xaa-Pro dipeptidase (EC 3.4.13.9) (X-Pro dipeptidase) (Proline dipeptidase) 5.6 54897 -0.14 Q9R020 Zinc finger protein 265 (Zinc finger, splicing) (Fragment) 9 36739 -1.35

17 SP Table 2: Functional classification of identified mouse proteins.

(A) Biological Process level three GO terms

Cerebella Total Total Cerebella Protein Protein Protein P-value Protein (%) GO Term Count Count (%) CELLULAR METABOLISM 457 48.10 3774 43.03 4.19E-04 PRIMARY METABOLISM 403 42.40 3598 41.02 1.75E-01 MACROMOLECULE METABOLISM 272 28.60 1873 21.35 8.40E-09 ESTABLISHMENT OF LOCALIZATION 234 24.60 1304 14.87 1.53E-17 TRANSPORT 234 24.60 1302 14.84 1.26E-17 CELL ORGANIZATION AND BIOGENESIS 132 13.90 637 7.26 9.83E-15 BIOSYNTHESIS 121 12.70 682 7.78 6.08E-09 SIGNAL TRANSDUCTION 107 11.30 1479 16.86 1.00E+00 BIOPOLYMER METABOLISM 104 10.90 910 10.38 2.54E-01 CATABOLISM 81 8.53 567 6.46 3.44E-03 PROTEIN LOCALIZATION 81 8.53 385 4.39 7.58E-10 ORGANOGENESIS 60 6.32 799 9.11 9.99E-01 CELL PROLIFERATION 59 6.21 615 7.01 8.33E-01 REGULATION OF METABOLISM 53 5.58 1242 14.16 1.00E+00 REGULATION OF CELLULAR PHYSIOLOGICAL PROCESS 48 5.05 388 4.42 1.42E-01 RESPONSE TO STRESS 43 4.53 526 6.00 9.78E-01 RESPONSE TO BIOTIC STIMULUS 42 4.42 551 6.28 9.94E-01 NEUROPHYSIOLOGICAL PROCESS 38 4.00 315 3.59 2.09E-01 CELL ADHESION 35 3.68 316 3.60 4.02E-01 RESPONSE TO EXTERNAL STIMULUS 33 3.47 615 7.01 1.00E+00 CELL-CELL SIGNALING 32 3.37 188 2.14 3.43E-03 NEGATIVE REGULATION OF PHYSIOLOGICAL PROCESS 27 2.84 281 3.20 7.13E-01 CELL DEATH 26 2.74 343 3.91 9.75E-01 CELL MOTILITY 22 2.32 150 1.71 5.43E-02 CELLULAR MORPHOGENESIS 20 2.11 142 1.62 8.64E-02 IMMUNE RESPONSE 17 1.79 380 4.33 1.00E+00 POSITIVE REGULATION OF PHYSIOLOGICAL PROCESS 17 1.79 269 3.07 9.93E-01 CELL HOMEOSTASIS 12 1.26 70 0.80 3.60E-02 ION HOMEOSTASIS 10 1.05 57 0.65 4.01E-02 REGULATION OF ORGANISMAL PHYSIOLOGICAL PROCESS 10 1.05 126 1.44 8.18E-01 SEXUAL REPRODUCTION 10 1.05 143 1.63 9.18E-01 NITROGEN COMPOUND METABOLISM 8 0.84 27 0.31 1.53E-03 EXTRACELLULAR MATRIX ORGANIZATION AND BIOGENESIS 7 0.74 31 0.35 1.51E-02 MUSCLE CONTRACTION 7 0.74 43 0.49 8.79E-02 NEUROTRANSMITTER SECRETION 7 0.74 20 0.23 7.08E-04 CELL ACTIVATION 6 0.63 109 1.24 9.59E-01

18 REGULATION OF CELL DIFFERENTIATION 6 0.63 72 0.82 6.77E-01 REGULATION OF GROWTH 6 0.63 80 0.91 7.79E-01 REGULATION OF NEUROGENESIS 6 0.63 22 0.25 6.80E-03 REGULATION OF PROTEIN KINASE ACTIVITY 6 0.63 46 0.52 2.27E-01 RESPONSE TO ENDOGENOUS STIMULUS 6 0.63 129 1.47 9.90E-01 RNA LOCALIZATION 6 0.63 19 0.22 2.68E-03 BLOOD VESSEL DEVELOPMENT 5 0.53 90 1.03 9.35E-01 CELL GROWTH 5 0.53 68 0.78 7.61E-01 EMBRYONIC DEVELOPMENT (SENSU METAZOA) 5 0.53 69 0.79 7.73E-01 NEURON DIFFERENTIATION 5 0.53 32 0.36 1.26E-01 POSITIVE REGULATION OF ENZYME ACTIVITY 5 0.53 67 0.76 7.48E-01 REGULATION OF SIGNAL TRANSDUCTION 5 0.53 80 0.91 8.79E-01 CELL DEVELOPMENT 4 0.42 27 0.31 1.62E-01 CELL MATURATION 4 0.42 16 0.18 2.34E-02 CIRCULATION 4 0.42 37 0.42 3.73E-01 NEGATIVE REGULATION OF DEVELOPMENT 4 0.42 43 0.49 5.06E-01 POSITIVE REGULATION OF DEVELOPMENT 4 0.42 39 0.44 4.18E-01 REGULATION OF CELL GROWTH 4 0.42 57 0.65 7.55E-01 AGING 3 0.32 12 0.14 3.34E-02 EMBRYONIC MORPHOGENESIS 3 0.32 62 0.71 9.16E-01 HORMONE SECRETION 3 0.32 14 0.16 5.67E-02 LEARNING 3 0.32 9 0.10 1.11E-02 MORPHOGENESIS OF AN EPITHELIUM 3 0.32 36 0.41 5.58E-01 REGULATION OF GTPASE ACTIVITY 3 0.32 14 0.16 5.67E-02 TUBE MORPHOGENESIS 3 0.32 22 0.25 2.10E-01 CELL AGING 2 0.21 7 0.08 3.18E-02 LYMPHOCYTE DIFFERENTIATION 2 0.21 52 0.59 9.32E-01 MYELOID BLOOD CELL DIFFERENTIATION 2 0.21 36 0.41 7.65E-01 NEGATIVE REGULATION OF ENZYME ACTIVITY 2 0.21 20 0.23 3.71E-01 PIGMENT METABOLISM 2 0.21 20 0.23 3.71E-01 REGULATION OF BODY FLUIDS 2 0.21 50 0.57 9.19E-01 REGULATION OF CELL ADHESION 2 0.21 23 0.26 4.62E-01 REGULATION OF SECRETION 2 0.21 18 0.21 3.09E-01 SECONDARY METABOLISM 2 0.21 24 0.27 4.91E-01 UREA CYCLE INTERMEDIATE METABOLISM 2 0.21 7 0.08 3.18E-02 ADIPOCYTE DIFFERENTIATION 1 0.11 7 0.08 1.71E-01 ADULT LOCOMOTORY BEHAVIOR 1 0.11 8 0.09 2.12E-01 APPENDAGE MORPHOGENESIS 1 0.11 27 0.31 8.07E-01 AUTOPHAGY 1 0.11 7 0.08 1.71E-01 AXIS SPECIFICATION 1 0.11 9 0.10 2.54E-01 BLOOD COAGULATION 1 0.11 45 0.51 9.63E-01 BODY GROWTH 1 0.11 11 0.13 3.39E-01 CELLULAR DEFENSE RESPONSE 1 0.11 43 0.49 9.56E-01 CHOLESTEROL HOMEOSTASIS 1 0.11 3 0.03 3.27E-02

19 DETERMINATION OF ADULT LIFE SPAN 1 0.11 3 0.03 3.27E-02 DNA METHYLATION 1 0.11 18 0.21 5.96E-01 DORSAL/VENTRAL PATTERN FORMATION 1 0.11 14 0.16 4.58E-01 EMBRYONIC HEART TUBE DEVELOPMENT 1 0.11 7 0.08 1.71E-01 EMBRYONIC PATTERN SPECIFICATION 1 0.11 14 0.16 4.58E-01 EPITHELIAL CELL DIFFERENTIATION 1 0.11 15 0.17 4.95E-01 INITIATION OF VIRAL INFECTION 1 0.11 3 0.03 3.27E-02 KERATINOCYTE DIFFERENTIATION 1 0.11 13 0.15 4.20E-01 MAINTENANCE OF LOCALIZATION 1 0.11 3 0.03 3.27E-02 MATING BEHAVIOR 1 0.11 1 0.01 0.00E+00 MEMORY 1 0.11 6 0.07 1.31E-01 MESODERM MORPHOGENESIS 1 0.11 8 0.09 2.12E-01 MYOBLAST DIFFERENTIATION 1 0.11 11 0.13 3.39E-01 NEGATIVE REGULATION OF GENE EXPRESSION, EPIGENETIC 1 0.11 10 0.11 2.97E-01 ORGANISMAL MOVEMENT 1 0.11 59 0.67 9.91E-01 PROXIMAL/DISTAL PATTERN FORMATION 1 0.11 3 0.03 3.27E-02 REGULATION OF 1-PHOSPHATIDYLINOSITOL 4-KINASE ACTIVITY 1 0.11 1 0.01 0.00E+00 REGULATION OF CASPASE ACTIVITY 1 0.11 21 0.24 6.81E-01 REGULATION OF FEMALE RECEPTIVITY 1 0.11 1 0.01 0.00E+00 REGULATION OF VIRAL GENOME REPLICATION 1 0.11 3 0.03 3.27E-02 RESPIRATORY TUBE DEVELOPMENT 1 0.11 26 0.30 7.90E-01 SPERMATID DEVELOPMENT 1 0.11 13 0.15 4.20E-01 VIRAL GENOME REPLICATION 1 0.11 3 0.03 3.27E-02 WATER HOMEOSTASIS 1 0.11 1 0.01 0.00E+00

20 (B) Molecular Functions level three GO terms

Cerebellar Total Mouse Cerebellar Total Mouse Protein Protein P-value Protein (%) Protein (%) Count Count GO Term PURINE NUCLEOTIDE BINDING 177 18.60 943 10.75 4.53E-15 CATION TRANSPORTER ACTIVITY 101 10.60 358 4.08 2.96E-21 HYDROLASE ACTIVITY, ACTING ON ACID ANHYDRIDES 92 9.68 324 3.69 1.12E-19 PRIMARY ACTIVE TRANSPORTER ACTIVITY 76 8.00 143 1.63 1.44E-37 CYTOSKELETAL PROTEIN BINDING 67 7.05 203 2.31 1.62E-18 RNA BINDING 64 6.74 290 3.31 5.79E-09 METAL ION TRANSPORTER ACTIVITY 34 3.58 62 0.71 1.48E-18 OXIDOREDUCTASE ACTIVITY, ACTING ON NADH OR NADPH 33 3.47 57 0.65 4.11E-19 NADH DEHYDROGENASE ACTIVITY 31 3.26 41 0.47 1.11E-23 UNFOLDED PROTEIN BINDING 31 3.26 100 1.14 7.95E-09 ATPASE ACTIVITY, COUPLED TO TRANSMEMBRANE MOVEMENT OF IONS 29 3.05 60 0.68 3.52E-14 OXIDOREDUCTASE ACTIVITY, ACTING ON CH-OH GROUP OF DONORS 24 2.53 71 0.81 4.10E-08 CALMODULIN BINDING 23 2.42 79 0.90 1.70E-06 ELECTROCHEMICAL POTENTIAL-DRIVEN TRANSPORTER ACTIVITY 22 2.32 111 1.27 1.59E-03 TRANSLATION FACTOR ACTIVITY, NUCLEIC ACID BINDING 18 1.89 64 0.73 2.91E-05 ANION TRANSPORTER ACTIVITY 13 1.37 53 0.60 1.18E-03 CARBOXYLIC ACID TRANSPORTER ACTIVITY 13 1.37 48 0.55 3.95E-04 ENZYME BINDING 10 1.05 54 0.62 2.80E-02 OXIDOREDUCTASE ACTIVITY, ACTING ON THE ALDEHYDE OR OXO GROUP OF DONORS 10 1.05 22 0.25 5.24E-06 AMINO ACID TRANSPORTER ACTIVITY 9 0.95 33 0.38 1.92E-03 CARBON-OXYGEN LYASE ACTIVITY 9 0.95 39 0.44 7.25E-03 PHOSPHOLIPID BINDING 9 0.95 52 0.59 5.00E-02 PROTEIN DOMAIN SPECIFIC BINDING 9 0.95 27 0.31 3.21E-04 TRANSLATION ELONGATION FACTOR ACTIVITY 9 0.95 17 0.19 2.04E-06 HEME-COPPER TERMINAL OXIDASE ACTIVITY 8 0.84 20 0.23 1.10E-04 INTRAMOLECULAR OXIDOREDUCTASE ACTIVITY 8 0.84 29 0.33 2.68E-03 OXIDOREDUCTASE ACTIVITY, ACTING ON HEME GROUP OF DONORS 8 0.84 20 0.23 1.10E-04 OXIDOREDUCTASE ACTIVITY, ACTING ON PEROXIDE AS ACCEPTOR 8 0.84 28 0.32 2.04E-03 SNARE BINDING 8 0.84 11 0.13 8.98E-08 OXIDOREDUCTASE ACTIVITY, ACTING ON DIPHENOLS AND RELATED SUBSTANCES AS DONORS 7 0.74 9 0.10 1.51E-07 TRANSFERASE ACTIVITY, TRANSFERRING NITROGENOUS GROUPS 7 0.74 18 0.21 3.00E-04 ORGANIC ACID:SODIUM SYMPORTER ACTIVITY 6 0.63 15 0.17 5.06E-04 RNA HELICASE ACTIVITY 5 0.53 12 0.14 8.30E-04

21 OXIDOREDUCTASE ACTIVITY, ACTING ON SULFUR GROUP OF DONORS 4 0.42 8 0.09 6.27E-04 OXIDOREDUCTASE ACTIVITY, ACTING ON THE CH-NH2 GROUP OF DONORS 4 0.42 13 0.15 9.06E-03 PHOSPHATASE INHIBITOR ACTIVITY 4 0.42 10 0.11 2.34E-03 PHOSPHOPROTEIN BINDING 4 0.42 5 0.06 1.48E-05 PROFILIN BINDING 3 0.32 5 0.06 6.28E-04 TRANSFERASE ACTIVITY, TRANSFERRING ALDEHYDE OR KETONIC GROUPS 3 0.32 3 0.03 0.00E+00

22 (C) Cellular Component level three GO terms.

Cerebellar Cerebellar Total Total Protein Protein Protein Protein P-value GO Term Count (%) Count (%) INTRACELLULAR ORGANELLE 528 55.60 3603 41.08 7.38E-22 CYTOPLASM 446 46.90 2105 24.00 3.46E-61 INTRACELLULAR MEMBRANE-BOUND ORGANELLE 421 44.30 3201 36.50 7.48E-08 1.00E+0 NUCLEUS 161 16.90 1981 22.59 0 INTRACELLULAR NON-MEMBRANE-BOUND ORGANELLE 157 16.50 722 8.23 1.49E-19 1.00E+0 INTEGRAL TO MEMBRANE 152 16.00 2210 25.20 0 PLASMA MEMBRANE 121 12.70 946 10.79 1.97E-02 CYTOSKELETON 109 11.50 406 4.63 5.60E-21 ORGANELLE MEMBRANE 69 7.26 222 2.53 2.05E-17 INNER MEMBRANE 53 5.58 117 1.33 2.09E-22 RIBONUCLEOPROTEIN COMPLEX 52 5.47 220 2.51 1.17E-08 MEMBRANE FRACTION 31 3.26 194 2.21 1.00E-02 RIBOSOME 27 2.84 127 1.45 1.77E-04 ENDOMEMBRANE SYSTEM 24 2.53 148 1.69 1.60E-02 SYNAPSE 20 2.11 84 0.96 1.81E-04 CHROMOSOME 19 2.00 141 1.61 1.27E-01 EXTRINSIC TO MEMBRANE 15 1.58 64 0.73 1.03E-03 PROTEASOME CORE COMPLEX (SENSU EUKARYOTA) 11 1.16 17 0.19 9.12E-09 COATED MEMBRANE 10 1.05 30 0.34 1.79E-04 OUTER MEMBRANE 10 1.05 39 0.44 2.20E-03 RESPIRATORY CHAIN COMPLEX I (SENSU EUKARYOTA) 9 0.95 10 0.11 2.15E-10 NEURONAL CELL PROJECTION 8 0.84 25 0.29 8.14E-04 PROTON-TRANSPORTING ATP SYNTHASE COMPLEX 8 0.84 11 0.13 8.98E-08 PROTON-TRANSPORTING ATP SYNTHASE COMPLEX (SENSU EUKARYOTA) 8 0.84 11 0.13 8.98E-08 SPLICEOSOME COMPLEX 8 0.84 41 0.47 2.88E-02 UBIQUITIN LIGASE COMPLEX 7 0.74 132 1.50 9.80E-01 VIRAL CAPSID (SENSU RETROVIRIDAE) 7 0.74 17 0.19 1.84E-04 CELL CORTEX 6 0.63 15 0.17 5.06E-04 CYTOSOLIC SMALL RIBOSOMAL SUBUNIT (SENSU EUKARYOTA) 6 0.63 13 0.15 1.64E-04 KINESIN COMPLEX 6 0.63 23 0.26 8.87E-03 PROTEIN SERINE/THREONINE PHOSPHATASE COMPLEX 6 0.63 17 0.19 1.26E-03 RESPIRATORY CHAIN COMPLEX IV 6 0.63 12 0.14 8.35E-05 RESPIRATORY CHAIN COMPLEX IV (SENSU EUKARYOTA) 6 0.63 12 0.14 8.35E-05 DYNEIN COMPLEX 5 0.53 13 0.15 1.40E-03 BASEMENT MEMBRANE 4 0.42 32 0.36 2.62E-01

23 POSTSYNAPTIC MEMBRANE 4 0.42 35 0.40 3.28E-01 SOLUBLE FRACTION 4 0.42 32 0.36 2.62E-01 APICAL PART OF CELL 3 0.32 9 0.10 1.11E-02 CALCIUM- AND CALMODULIN-DEPENDENT PROTEIN KINASE COMPLEX 3 0.32 4 0.05 1.37E-04 ELECTRON TRANSFER FLAVOPROTEIN COMPLEX (SENSU 0.00E+0 EUKARYOTA) 3 0.32 3 0.03 0 EXTERNAL SIDE OF PLASMA MEMBRANE 3 0.32 59 0.67 8.95E-01 GROWTH CONE 3 0.32 5 0.06 6.28E-04 RESPIRATORY CHAIN COMPLEX III 3 0.32 5 0.06 6.28E-04 0.00E+0 RESPIRATORY CHAIN COMPLEX III (SENSU EUKARYOTA) 3 0.32 3 0.03 0 UBIQUINOL-CYTOCHROME-C REDUCTASE COMPLEX 3 0.32 5 0.06 6.28E-04 UBIQUINOL-CYTOCHROME-C REDUCTASE COMPLEX (SENSU 0.00E+0 EUKARYOTA) 3 0.32 3 0.03 0 0.00E+0 AP-2 ADAPTOR COMPLEX 2 0.21 2 0.02 0 CAMP-DEPENDENT PROTEIN KINASE COMPLEX 2 0.21 8 0.09 4.69E-02 CELL ENVELOPE 2 0.21 6 0.07 1.98E-02 DYNACTIN COMPLEX 2 0.21 4 0.05 4.67E-03 0.00E+0 GLYCEROL-3-PHOSPHATE DEHYDROGENASE COMPLEX 2 0.21 2 0.02 0 INSOLUBLE FRACTION 2 0.21 8 0.09 4.69E-02 PROTEIN KINASE CK2 COMPLEX 2 0.21 3 0.03 1.27E-03 SMALL NUCLEOLAR RIBONUCLEOPROTEIN COMPLEX 2 0.21 18 0.21 3.09E-01 CHROMATIN SILENCING COMPLEX 1 0.11 8 0.09 2.12E-01 CILIUM 1 0.11 11 0.13 3.39E-01 COLLAGEN 1 0.11 19 0.22 6.26E-01 ENDOPLASMIC RETICULUM LUMEN 1 0.11 4 0.05 6.07E-02 FIBRIL 1 0.11 5 0.06 9.40E-02 HISTONE DEACETYLASE COMPLEX 1 0.11 13 0.15 4.20E-01 0.00E+0 ISOCITRATE DEHYDROGENASE COMPLEX (NAD+) 1 0.11 1 0.01 0 PERIPLASMIC SPACE (SENSU GRAM-NEGATIVE BACTERIA) 1 0.11 2 0.02 1.17E-02 PHOSPHORIBOSYLAMINOIMIDAZOLE CARBOXYLASE 0.00E+0 COMPLEX 1 0.11 1 0.01 0 PHOSPHORYLASE KINASE COMPLEX 1 0.11 5 0.06 9.40E-02 PRESYNAPTIC MEMBRANE 1 0.11 3 0.03 3.27E-02 PROTEASOME REGULATORY PARTICLE (SENSU EUKARYOTA) 1 0.11 2 0.02 1.17E-02 PYRUVATE DEHYDROGENASE COMPLEX (SENSU 0.00E+0 EUKARYOTA) 1 0.11 1 0.01 0 0.00E+0 RCAF COMPLEX 1 0.11 1 0.01 0 SCF UBIQUITIN LIGASE COMPLEX 1 0.11 4 0.05 6.07E-02 TRANSCRIPTION FACTOR TFIIH COMPLEX 1 0.11 4 0.05 6.07E-02

24