Experimental dataset for Supplementary Table S1

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Williams-Beuren syndrome chromosome region 5. 1344 ... eukaryotic translation initiation factor 3, subunit 6 48kDa. 7515 .... 5'-3' exoribonuclease 2. 5754.
AP Index zratio 5.109185 7414 3.736921 7764 3.670863 7741 3.581444 8333 3.400401 7464 3.340835 8316 3.284262 5874 3.239124 7239 3.225241 3791 3.170774 7489 3.164164 7814 3.076875 1344 3.019542 6641 2.991762 6422 2.975431 7440 2.960869 5998 2.956794 4676 2.952633 4374 2.881012 7439 2.868064 7023 2.771303 5008 2.752057 7766 2.722666 7673 2.713445 7639 2.695419 8769 2.694652 3123 2.687407 481 2.685408 7162 2.667936 8864 2.662549 7839 2.661613 3467 2.642447 7364 2.638363 7214 2.624414 7690 2.622603 1823 2.62214 1313 2.616447 2923 2.60887 7691 2.608336 3973 2.591072 1126 2.577004 4474 2.548269 8915 2.529887 1049 2.510007 6198 2.503653 6473 2.485702 7515 2.477166 5315 2.423842 2883 2.419028 3551 2.415075 6324 2.407523 1076 2.37331 377 2.34896 2835 2.346516 3442 2.333805 5126 2.33244 2948 2.327276 7864 2.32683 4141 2.325619 2376 2.31699 7791

UGRepAcc NM_080656 NM_017880 NM_017814 NM_002657 NM_031480 NM_005754 NM_138450 NM_032930 NM_006451 NM_014771 NM_022040 NM_018369 NM_002994 NM_021213 NM_022917 NM_021126 NM_001412 NM_000136 NM_012305 NM_006916 NM_014056 NM_006333 NM_005851 NM_032324 NM_004671 NM_020066 NM_144498 NM_001207 NM_004082 NM_006570 NM_001172 NM_000884 NM_000120 NM_032754 NM_021141 NM_031266 NM_016623 NM_002520 NM_021870 NM_002129 NM_006374 NM_003343 BC015784 NM_001274 NM_001568 NM_032918 NM_021079 NM_000194 NM_031314 NM_001255 AB014540 NM_016035 NM_006370 NM_006335 NM_005034 NM_007352 NM_016360 NM_022051 NM_006135 NM_002492

Symbol MGC13017 FLJ20558 FLJ20422 PLAGL2 AD034 G3BP LOC115761 MGC13040 PAIP1 RNF40 WBSCR5 FLJ11252 CXCL5 PCTP Nrap MPST EIF1A FANCC AP2A2 RPE HIG1 C1D DOC-1R MGC13186 PIASX-BETA FMN2 OSBPL2 BTF3 DCTN1 RAGA ARG2 IMPDH2 EPHX1 MGC15763 XRCC5 HNRPAB BM-009 NPM1 FGG HMGB2 STK25 UBE2G2 CHEK1 EIF3S6 RERG NMT1 HPRT1 HNRPC CDC20 SWAP70 COQ4 VTI1B TIMM17A POLR2K ELA3B LOC51204 EGLN1 CAPZA1 NDUFB5

Name similar to RIKEN cDNA A430101B06 gene hypothetical protein FLJ20558 hypothetical protein FLJ20422 pleiomorphic adenoma gene-like 2 AD034 protein Ras-GTPase-activating protein SH3-domain-binding protein hypothetical protein MGC17429 hypothetical protein MGC13040 polyadenylate binding protein-interacting protein 1 ring finger protein 40 Williams-Beuren syndrome chromosome region 5 HBxAg transactivated protein 1 chemokine (C-X-C motif) ligand 5 phosphatidylcholine transfer protein nucleolar protein family 6 (RNA-associated) mercaptopyruvate sulfurtransferase eukaryotic translation initiation factor 1A Fanconi anemia, complementation group C adaptor-related protein complex 2, alpha 2 subunit ribulose-5-phosphate-3-epimerase likely ortholog of mouse hypoxia induced gene 1 nuclear DNA-binding protein tumor suppressor deleted in oral cancer-related 1 hypothetical protein MGC13186 Msx-interacting-zinc finger formin 2 oxysterol binding protein-like 2 basic transcription factor 3 dynactin 1 (p150, glued homolog, Drosophila) Ras-related GTP-binding protein arginase, type II IMP (inosine monophosphate) dehydrogenase 2 epoxide hydrolase 1, microsomal (xenobiotic) hypothetical protein BC008322 X-ray repair complementing defective repair Chinese hamster cells 5 heterogeneous nuclear ribonucleoprotein A/B hypothetical protein BM-009 nucleophosmin (nucleolar phosphoprotein B23, numatrin) fibrinogen, gamma polypeptide high-mobility group box 2 serine/threonine kinase 25 (STE20 homolog, yeast) ubiquitin-conjugating enzyme E2G 2 (UBC7 homolog, yeast) Homo sapiens, clone IMAGE:4861097, mRNA CHK1 checkpoint homolog (S. pombe) eukaryotic translation initiation factor 3, subunit 6 48kDa RAS-like, estrogen-regulated, growth-inhibitor N-myristoyltransferase 1 hypoxanthine phosphoribosyltransferase 1 (Lesch-Nyhan syndrome) heterogeneous nuclear ribonucleoprotein C (C1/C2) CDC20 cell division cycle 20 homolog (S. cerevisiae) SWAP-70 protein coenzyme Q4 homolog (yeast) vesicle transport through interaction with t-SNAREs homolog 1B translocase of inner mitochondrial membrane 17 homolog A (yeast) polymerase (RNA) II (DNA directed) polypeptide K, 7.0kDa elastase 3B, pancreatic clone HQ0477 PRO0477p egl nine homolog 1 (C. elegans) capping protein (actin filament) muscle Z-line, alpha 1 NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5, 16kDa

6426 8512 384 4349 556 3617 301 1024 9332 3291 3573 6578 8366 3473 6416 5007 1340 449 1705 1167 2303 4187 8314 2906 993 5622 6462 591 491 6420 5301 9342 6773 6474 3392 3503 9429 1117 4399 7339 8766 2099 431 6507 944 1034 7765 1654 3024 8921 7640 7740 4117 118 3456 8023 1135 7337 3914 2642 7572 5835

2.300777 2.282054 2.276967 2.231356 2.226442 2.226207 2.212897 2.188389 2.182684 2.179989 2.172589 2.166201 2.161979 2.155116 2.153603 2.151888 2.151365 2.130814 2.126529 2.119263 2.095305 2.081601 2.075263 2.0696 2.069145 2.066005 2.054846 2.05034 2.047331 2.044528 2.041541 2.040018 2.019968 2.011493 2.009228 2.009018 2.004084 1.999005 1.998844 1.99345 1.990204 1.98827 1.975331 1.973168 1.968719 1.960096 1.959728 1.958427 1.947367 1.931772 1.929764 1.920475 1.916318 1.90538 1.904124 1.901306 1.898926 1.898519 1.893992 1.893655 1.882543 1.88126

NM_001799 NM_014736 NM_005898 NM_022105 NM_001780 NM_004888 NM_006530 NM_139162 NM_030969 NM_014886 NM_030969 NM_015952 NM_004675 NM_000146 NM_003350 NM_007032 AK054718 BC022881 NM_003330 NM_003133 NM_145261 NM_023075 NM_006305 NM_016106 NM_014034 NM_012326 NM_004309 NM_014313 NM_025109 NM_001402 NM_024090 NM_001124 NM_006937 NM_001967 NM_014220 NM_003689 NM_012098 NM_018947 NM_005955 NM_032344 NM_004681 BC015765 NM_002130 NM_016462 NM_003186 NM_005016 AF212371 NM_018309 NM_024119 BF797140 NM_016547 NM_001823 NM_004718 NM_053056 NM_000344 NM_002828 NM_015511 NM_006854 NM_001659 NM_001568 NM_138343 NM_006601

CDK7 KIAA0101 M11S1 DATF1 CD63 ATP6V1G1 GAS41 SMCR7 MGC1223 YR-29 MGC1223 PTD013 ARHI FTL UBE2V2 HRIHFB2122

cyclin-dependent kinase 7 (MO15 homolog, Xenopus laevis, CAK) KIAA0101 gene product membrane component, chromosome 11, surface marker 1 death associated transcription factor 1 CD63 antigen (melanoma 1 antigen) ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G isoform 1 glioma-amplified sequence-41 Smith-Magenis syndrome chromosome region, candidate 7 hypothetical protein MGC1223 hypothetical protein YR-29 hypothetical protein MGC1223 PTD013 protein ras homolog gene family, member I ferritin, light polypeptide ubiquitin-conjugating enzyme E2 variant 2 Tara-like protein Homo sapiens cDNA FLJ30156 fis, clone BRACE2000487. Homo sapiens, clone IMAGE:4843460, mRNA TXNRD1 thioredoxin reductase 1 SRP9 signal recognition particle 9kDa LOC131118 similar to RIKEN cDNA 1810055D05 MPPE1 metallo phosphoesterase ANP32A acidic (leucine-rich) nuclear phosphoprotein 32 family, member A RA410 vesicle transport-related protein DKFZP547E2110 anti-silencing function 1A MAPRE3 microtubule-associated protein, RP/EB family, member 3 ARHGDIA Rho GDP dissociation inhibitor (GDI) alpha SMP1 small membrane protein 1 FLJ22865 hypothetical protein FLJ22865 EEF1A1 eukaryotic translation elongation factor 1 alpha 1 LCE long-chain fatty-acyl elongase ADM adrenomedullin SMT3H2 SMT3 suppressor of mif two 3 homolog 2 (yeast) EIF4A2 eukaryotic translation initiation factor 4A, isoform 2 TM4SF1 transmembrane 4 superfamily member 1 AKR7A2 aldo-keto reductase family 7, A2 (aflatoxin aldehyde reductase) ANGPTL2 angiopoietin-like 2 HCS cytochrome c, somatic MTF1 metal-regulatory transcription factor 1 MGC13045 hypothetical protein MGC13045 EIF1AY eukaryotic translation initiation factor 1A, Y chromosome LOC163233 similar to Zinc finger protein 93 (Zinc finger protein HTF34) HMGCS1 3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 (soluble) HSPC194 hypothetical protein HSPC194 TAGLN transgelin PCBP2 poly(rC) binding protein 2 SPINL spinster-like protein FLJ11046 hypothetical protein FLJ11046 LGP2 likely ortholog of mouse D11lgp2 ESTs, Highly similar to hypothetical protein PRO1843 [H.sapiens] Cab45 calcium binding protein Cab45 precursor CKB creatine kinase, brain COX7A2L cytochrome c oxidase subunit VIIa polypeptide 2 like CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) SMN1 survival of motor neuron 1, telomeric PTPN2 protein tyrosine phosphatase, non-receptor type 2 C20orf4 chromosome 20 open reading frame 4 KDELR2 KDEL (Lys-Asp-Glu-Leu) ER protein retention receptor 2 ARF3 ADP-ribosylation factor 3 EIF3S6 eukaryotic translation initiation factor 3, subunit 6 48kDa LOC89953 hypothetical protein BC012357 TEBP unactive progesterone receptor, 23 kD

7930 7723 4544 3889 581 2918 8315 8340 8209 4224 1645 943 7159 2041 6839 9403 4449 4148 1763 9147 7615 7665 3160 8414 4738 7695 5751 5601 8790 512 8874 8729 1151 1651 7503 4337 4668 3023 4407 5481 4699 1637 4223 5883 3334 7314 5754 1695 2988 2864 8828 1822 5628 7066 8861 648 4593 3094 1466 952 58 4460

1.864755 1.860413 1.849656 1.847122 1.846885 1.838781 1.838219 1.836791 1.836565 1.830917 1.829078 1.816654 1.816245 1.815598 1.815239 1.809967 1.809213 1.792174 1.788492 1.779674 1.778418 1.773509 1.771675 1.76623 1.76444 1.762848 1.76268 1.759309 1.752133 1.749005 1.74745 1.744231 1.736338 1.736094 1.735326 1.733987 1.731648 1.728218 1.723828 1.722819 1.722414 1.720333 1.699715 1.69738 1.685431 1.681357 1.678099 1.676176 1.67545 1.675442 1.669376 1.66724 1.665002 1.664422 1.659005 1.656221 1.655824 1.64454 1.641086 1.635892 1.630034 1.625608

NM_139126 NM_002567 NM_004893 NM_001303 NM_057161 NM_001658 NM_012154 NM_002708 NM_014764 NM_133180 NM_004559 NM_002916 NM_001168 NM_024536 NM_054016 NM_016101 NM_006649 NM_024051 NM_001743 AL137304 NM_018207 NM_019008 NM_004656 NM_024758 NM_001614 NM_024782 NM_016359 NM_005000 NM_003457 NM_014754 NM_015927 NM_005412 NM_002396 NM_007208 NM_006708 NM_006791 NM_017804 NM_148976 NM_002437 NM_031243 NM_003716 NM_003357 NM_016304 NM_001863 NM_018214 NM_012255 NM_006345 NM_021972 NM_004316 NM_015386 NM_006606 NM_020895 NM_004729 NM_015895 NM_000691 NM_017913 NM_006358 NM_016060 NM_001694 NM_003143 NM_020532 NM_007033

PPIL4 PBP H2AFY COX10 PEAS ARF1 EIF2C2 PPP1CA DAZAP2 EPS8R1 NSEP1 RFC4 BIRC5 FLJ22678 FUSIP1 HSPC031 SDCCAG16 MGC3077 CALM2 DKFZp434H247 FLJ10759 FLJ20232 BAP1 AGMAT ACTG1 FLJ12610 ANKT NDUFA5 ZNF207 PTDSS1 TGFB1I1 SHMT2 ME2 MRPL3 GLO1 MRG15 FLJ20400 PSMA1 MPV17 HNRPA2B1 CADPS SCGB1A1 C15orf15 COX6B LANO XRN2 C4orf1 SPHK1 ASCL1 COG4 RBBP9 KIAA1533 ALTE GMNN ALDH3A1 HARC SLC25A17 CGI-125 ATP6V0C SSBP1 RTN4 RER1

peptidylprolyl isomerase (cyclophilin)-like 4 prostatic binding protein H2A histone family, member Y COX10 homolog, cytochrome c oxidase assembly protein, heme A: testis intracellular mediator protein ADP-ribosylation factor 1 eukaryotic translation initiation factor 2C, 2 protein phosphatase 1, catalytic subunit, alpha isoform DAZ associated protein 2 EGF receptor pathway substrate 8-related protein 1 nuclease sensitive element binding protein 1 replication factor C (activator 1) 4, 37kDa baculoviral IAP repeat-containing 5 (survivin) hypothetical protein FLJ22678 FUS interacting protein (serine-arginine rich) 1 hypothetical protein HSPC031 serologically defined colon cancer antigen 16 hypothetical protein MGC3077 calmodulin 2 (phosphorylase kinase, delta) hypothetical protein DKFZp434H247 hypothetical protein FLJ10759 hypothetical protein FLJ20232 BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase) agmatine ureohydrolase (agmatinase) actin, gamma 1 hypothetical protein FLJ12610 nucleolar protein ANKT NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 5, 13kDa zinc finger protein 207 phosphatidylserine synthase 1 transforming growth factor beta 1 induced transcript 1 serine hydroxymethyltransferase 2 (mitochondrial) malic enzyme 2, NAD(+)-dependent, mitochondrial mitochondrial ribosomal protein L3 glyoxalase I mortality factor 4 like 1 hypothetical protein FLJ20400 proteasome (prosome, macropain) subunit, alpha type, 1 MpV17 transgene, murine homolog, glomerulosclerosis heterogeneous nuclear ribonucleoprotein A2/B1 Ca2+-dependent activator protein for secretion secretoglobin, family 1A, member 1 (uteroglobin) chromosome 15 open reading frame 15 cytochrome c oxidase subunit VIb LAP (leucine-rich repeats and PDZ) and no PDZ protein 5'-3' exoribonuclease 2 chromosome 4 open reading frame 1 sphingosine kinase 1 achaete-scute complex-like 1 (Drosophila) component of oligomeric golgi complex 4 retinoblastoma binding protein 9 KIAA1533 protein Ac-like transposable element geminin, DNA replication inhibitor aldehyde dehydrogenase 3 family, memberA1 Hsp90-associating relative of Cdc37 solute carrier family 25 (mitochondrial carrier; 34kDa), member 17 CGI-125 protein ATPase, H+ transporting, lysosomal 16kDa, V0 subunit c single-stranded DNA binding protein reticulon 4 similar to S. cerevisiae RER1

6099 2881 2998 8098 266 6485 154 1045 6528 2098 2643 1961 1501 4549 567 1682 8198 9424 934 7212 5873 5749 858 8284 7716 3281 309 6212 4173 518 6156 959 4003 4535 1679 7312 4682 6372 451 4785 8666 7293 7367 1112 7361 176 2603 2986 7473 7373 1046 1130 1491 6101 4045 1058 8048 1574 3974 1216

1.62533 1.62187 1.616747 1.612698 1.61266 1.611232 1.609639 1.607742 1.604599 1.604511 1.59755 1.59266 1.585042 1.584961 1.583139 1.578197 1.573658 1.57326 1.569888 1.565266 1.564217 1.563299 1.560552 1.558605 1.55757 1.556874 1.553939 1.539349 1.534978 1.530806 1.530053 1.528289 1.525739 1.522512 1.521998 1.521035 1.520301 1.52009 1.507386 1.504534 1.501872 1.500703 1.499254 1.496763 1.495021 1.489309 1.486823 1.486723 1.486024 1.478295 1.47825 1.475609 1.472909 1.467157 1.464661 1.46341 1.45953 1.45901 1.453912 1.448939

NM_001154 NM_003705 NM_000183 NM_006965 NM_012090 NM_005801 BC013633 NM_053045 NM_012140 NM_002574 AK025522 NM_006793 NM_006388 NM_012234 NM_032549 NM_025267 NM_006320 NM_016093 NM_000692 NM_032374 NM_004261 NM_020948 NM_006148 NM_001275 NM_018339 NM_024692 NM_003512 NM_004051 NM_016245 NM_021095 NM_001467 NM_030810 NM_003141 NM_015640 NM_005954 NM_004728 NM_017856 NM_018480 NM_005439 NM_006373 NM_007167 NM_016119 NM_144503 NM_004823 NM_003904 NM_003348 NM_018845 NM_002275 NM_032574 NM_033035 NM_003550 NM_014960 NM_032766 NM_003142 NM_146388 NM_006468 NM_138288 NM_052854 NM_032174 NM_016029

ANXA5 SLC25A12 HADHB ZNF24 MACF1 SUI1 MGC14327 SLC25A10 PRDX1 PRDX3 HTATIP RYBP IMMP2L MGC2744 PGRMC2 RPL26L1 ALDH1B1 MGC2562 SEP15 MI-ER1 LASP1 CHGA FLJ11149 FLJ21069 H2AFL BDH RetSDR2 SLC5A6 G6PT1 MGC3178 SSA1 PAI-RBP1 MT3 DDX21 FLJ20514 HT007 MLF2 VAT1 ZNF258 NY-REN-34 JAM1 KCNK6 ZNF259 UBE2N LOC55974 KRT15 LOC84661 TSLP MAD1L1 KIAA1001 MGC16179 SSB MRPL4 RPC62 MGC24447 OASIS FLJ12770 retSDR4

annexin A5 solute carrier family 25 (mitochondrial carrier, Aralar), member 12 hydroxyacyl-Co A dehydrogenase/3-ketoacyl-Co A thiolase/,,, zinc finger protein 24 (KOX 17) microtubule-actin crosslinking factor 1 putative translation initiation factor Homo sapiens, clone IMAGE:3448785, mRNA hypothetical protein MGC14327 solute carrier family 25 (mitochondrial carrier), member 10 peroxiredoxin 1 Homo sapiens cDNA: FLJ21869 fis, clone HEP02442. peroxiredoxin 3 HIV-1 Tat interactive protein, 60kDa RING1 and YY1 binding protein inner mitochondrial membrane peptidase 2 like hypothetical protein MGC2744 progesterone receptor membrane component 2 ribosomal protein L26-like 1 aldehyde dehydrogenase 1 family, member B1 Similar to RIKEN cDNA 2810002N01 gene 15 kDa selenoprotein mesoderm induction early response 1 LIM and SH3 protein 1 chromogranin A (parathyroid secretory protein 1) hypothetical protein FLJ11149 hypothetical protein FLJ21069 histone 1, H2ac 3-hydroxybutyrate dehydrogenase (heart, mitochondrial) retinal short-chain dehydrogenase/reductase 2 solute carrier family 5 (sodium-dep. vitamin transporter), member 6 glucose-6-phosphatase, transport (glucose-6-phosphate) protein 1 thioredoxin related protein Sjogren syndrome antigen A1 (52kDa, RNPautoantigen SS-A/Ro) PAI-1 mRNA-binding protein metallothionein 3 (growth inhibitory factor (neurotrophic)) DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 21 hypothetical protein FLJ20514 uncharacterized hypothalamus protein HT007 myeloid leukemia factor 2 vesicle amine transport protein 1 homolog (T californica) zinc finger protein 258 putative zinc finger protein NY-REN-34 antigen F11 receptor potassium channel, subfamily K, member 6 zinc finger protein 259 ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) stromal cell protein keratin 15 dpy-30-like protein thymic stromal lymphopoietin MAD1 mitotic arrest deficient-like 1 (yeast) KIAA1001 protein hypothetical protein MGC16179 Sjogren syndrome antigen B (autoantigen La) mitochondrial ribosomal protein L4 polymerase (RNA) III (DNA directed) (62kD) chromosome 14 open reading frame 147 old astrocyte specifically induced substance hypothetical protein FLJ12770 retinal short-chain dehydrogenase/reductase 4