Supplementary Material

A Gene Expression Signature Associated With Overall Survival in

Patients With Hepatocellular Carcinoma Suggests a New Treatment

Strategy

Jean-Pierre Gillet, Jesper B. Andersen, James P. Madigan, Sudhir Varma, Rachel K.

Bagni, Katie Powell, William E. Burgan, Chung-Pu Wu, Anna Maria Calcagno, Suresh V.

Ambudkar, Snorri S. Thorgeirsson, Michael M. Gottesman

Journal: Molecular Pharmacology Table S1: Compounds highlighted through the Connectivity Map tool

Rank for Name of drug on Connectivity Map score - Number of Connectivity Map Probability of getting Proportion of other drugs Drug signature is drug, rated Connectivity Map similarity between the experiments used score normalized an enrichment this that share this same significant for what according to gene expression signature to compute mean using scores from high if there is no signature (smaller values percent of the "n" p-value of drug and the signature similarity random selections of connection between mean that the signature is experiments? used as input genes drug signature and very specific to this input signature particular drug)

Rank C-map name Mean n Enrichment p Specificity Percent non-null

1 8-azaguanine 0.916 4 0.975 0 0 100 2 adiphenine -0.765 5 -0.909 0 0.0242 100 3 trichostatin A 0.485 182 0.306 0 0.7204 73 4 tanespimycin 0.474 62 0.297 0 0.3834 72 5 apigenin 0.851 4 0.937 0.00002 0.0234 100 6 0175029-0000 0.797 6 0.86 0.00002 0.0177 100 7 thiamphenicol -0.711 5 -0.903 0.00004 0 100 8 thioguanosine 0.821 4 0.902 0.0001 0.0177 100 9 viomycin -0.723 4 -0.9 0.00016 0.0144 100 10 GW-8510 0.846 4 0.886 0.00016 0.0939 100 11 heptaminol -0.676 5 -0.802 0.00068 0.0137 100 12 biperiden -0.644 5 -0.783 0.00086 0.0408 100 13 Prestwick-692 -0.719 4 -0.852 0.00092 0.0068 100 14 trifluoperazine 0.542 16 0.466 0.00094 0.274 75 15 gentamicin -0.621 4 -0.846 0.00101 0.0263 100 16 thiostrepton 0.753 4 0.835 0.00115 0.0539 100 17 phenoxybenzamine 0.8 4 0.829 0.00127 0.2525 100 18 fludrocortisone -0.319 8 -0.634 0.00136 0.0704 62 19 skimmianine 0.76 4 0.826 0.00143 0.0082 100 20 felbinac -0.695 4 -0.831 0.00147 0.0355 100 21 lisuride -0.528 5 -0.756 0.0016 0.0492 100 22 trimethobenzamide -0.536 5 -0.751 0.00176 0.0201 100 23 vorinostat 0.539 12 0.513 0.00198 0.4422 75 24 nadolol -0.57 4 -0.812 0.00233 0.0615 100 25 Gly-His-Lys -0.677 3 -0.892 0.0024 0.0149 100 26 daunorubicin 0.733 4 0.792 0.00366 0.0758 100 27 isoflupredone -0.713 3 -0.876 0.00385 0.1083 100 28 medrysone 0.763 6 0.667 0.00385 0.0787 100 29 3-acetamidocoumarin -0.679 4 -0.787 0.00412 0.0844 100 30 isoxicam -0.55 5 -0.711 0.00429 0.0811 80 31 luteolin 0.785 4 0.78 0.00442 0.073 100 32 Prestwick-983 -0.611 3 -0.869 0.00445 0.0206 100 33 tyloxapol 0.755 4 0.779 0.0045 0.0182 100 34 camptothecin 0.742 3 0.865 0.00463 0.2098 100 35 phthalylsulfathiazole 0.771 5 0.711 0.00473 0.0354 100 36 vincamine -0.373 6 -0.653 0.00475 0.0529 66 37 trazodone 0.749 3 0.863 0.00481 0.0373 100 38 meticrane 0.789 5 0.709 0.00495 0.028 100 39 chloropyrazine -0.582 4 -0.779 0.00497 0.0195 100 40 Prestwick-1082 -0.652 3 -0.862 0.00535 0.082 100 41 gabexate -0.589 4 -0.77 0.00567 0.052 100 42 podophyllotoxin -0.658 4 -0.768 0.00577 0.0686 100 43 chenodeoxycholic acid -0.552 4 -0.766 0.00603 0.0615 100 44 PHA-00745360 -0.394 8 -0.561 0.00654 0.1395 75 45 colistin -0.553 4 -0.762 0.00658 0.0231 100 46 atractyloside -0.53 5 -0.686 0.00703 0.0303 80 47 finasteride -0.35 6 -0.634 0.00709 0.1402 66 48 chrysin 0.775 3 0.844 0.00745 0.0351 100 49 chlorhexidine -0.306 5 -0.682 0.00747 0.015 60 50 Prestwick-1103 -0.627 4 -0.752 0.00762 0.0397 100 51 quinpirole -0.554 4 -0.752 0.00762 0.0148 100 52 norcyclobenzaprine 0.73 4 0.749 0.00762 0.0546 100 53 Prestwick-691 -0.683 3 -0.842 0.00783 0.0592 100 54 canadine -0.575 4 -0.747 0.00812 0.0604 100 55 thioperamide -0.457 5 -0.677 0.00815 0.0672 80 56 isometheptene -0.485 4 -0.747 0.00818 0.0414 100 57 monensin -0.289 6 -0.627 0.00842 0.1545 50 58 0297417-0002B 0.747 3 0.838 0.00843 0.0947 100 59 Prestwick-1084 0.734 4 0.74 0.00875 0.0103 100 60 merbromin -0.479 5 -0.671 0.00889 0.0732 80 61 etiocholanolone -0.52 6 -0.623 0.00918 0.1688 83 62 penbutolol -0.664 3 -0.833 0.00933 0.0074 100 63 timolol -0.432 4 -0.737 0.00953 0.0448 75 64 CP-320650-01 -0.331 8 -0.541 0.01019 0.1223 75 65 levomepromazine -0.428 4 -0.732 0.01038 0.0094 75 66 bufexamac 0.694 4 0.731 0.0104 0.0211 100 67 sulfadimethoxine -0.536 5 -0.662 0.01043 0.1407 80 68 furazolidone -0.403 4 -0.732 0.01044 0.0191 75 69 procaine 0.654 5 0.667 0.01077 0.0522 100 70 aciclovir -0.523 6 -0.612 0.01104 0.0729 83 71 diphenhydramine -0.603 5 -0.658 0.01137 0.0963 80 72 mebhydrolin -0.537 4 -0.726 0.01158 0.0168 75 73 pindolol -0.441 5 -0.657 0.01158 0.0206 80 74 pargyline 0.666 4 0.72 0.01237 0.0472 100 75 pheneticillin -0.457 4 -0.721 0.01239 0.0327 75 76 alprostadil -0.429 7 -0.563 0.01247 0.04 71 77 Prestwick-642 -0.462 4 -0.718 0.01271 0.0552 75 78 ajmaline -0.649 3 -0.814 0.01278 0.0355 100 79 cycloserine 0.678 4 0.718 0.01297 0.0385 100 80 repaglinide 0.674 4 0.717 0.01307 0.0741 100 81 dicycloverine -0.32 5 -0.645 0.01402 0.0382 60 82 LY-294002 0.375 61 0.198 0.0146 0.651 65 83 chlorpromazine 0.495 19 0.351 0.01462 0.0705 84 84 H-7 0.651 4 0.704 0.01597 0.25 100 85 prochlorperazine 0.511 16 0.374 0.01604 0.4029 81 86 carteolol -0.342 4 -0.703 0.01605 0.0296 50 87 dapsone -0.41 5 -0.635 0.01668 0.084 80 88 resveratrol 0.619 9 0.487 0.01689 0.3382 100 89 diethylstilbestrol -0.307 6 -0.588 0.01706 0.082 83 90 nitrofurantoin 0.666 5 0.641 0.01718 0.0467 100 91 tranexamic acid -0.484 5 -0.632 0.01738 0.2282 80 92 guanabenz -0.528 5 -0.632 0.01748 0.1308 80 93 methyldopate -0.347 4 -0.698 0.01751 0.0438 75 94 midodrine -0.389 5 -0.631 0.01762 0.1579 60 95 ifenprodil 0.689 4 0.696 0.01774 0.0435 100 96 tetracycline -0.401 5 -0.627 0.01874 0.0566 60 97 omeprazole 0.73 4 0.692 0.01884 0.1009 100 98 vinblastine -0.616 3 -0.79 0.01893 0.1145 100 99 bisacodyl 0.67 4 0.691 0.01898 0.0851 100 100 isoniazid -0.414 5 -0.624 0.01949 0.0994 80 101 lasalocid -0.437 4 -0.691 0.01959 0.1296 75 102 iohexol -0.495 4 -0.688 0.02037 0.0511 75 103 cetirizine 0.717 4 0.685 0.02093 0.0571 100 104 levobunolol -0.443 4 -0.685 0.02137 0.1154 75 105 naringenin -0.392 4 -0.684 0.02172 0.0968 50 106 sulfamonomethoxine -0.42 4 -0.679 0.02357 0.0861 50 107 hexetidine -0.453 4 -0.677 0.02401 0.0769 75 108 imipenem 0.667 4 0.676 0.02409 0.0153 100 109 pyrithyldione -0.6 4 -0.677 0.02425 0.0775 75 110 bepridil 0.689 4 0.675 0.02441 0.1722 100 111 iproniazid -0.299 5 -0.611 0.02473 0.0602 60 112 calcium folinate -0.527 5 -0.611 0.02489 0.1221 80 113 streptozocin -0.389 4 -0.674 0.02524 0.0556 75 114 ethotoin 0.661 6 0.564 0.02525 0.0661 100 115 PF-00539745-00 -0.517 3 -0.769 0.02538 0.0889 100 116 iopamidol -0.48 4 -0.673 0.02572 0.0588 75 117 antimycin A 0.69 5 0.613 0.02577 0.1011 100 118 ellipticine 0.64 4 0.669 0.02674 0.2265 75 119 propafenone 0.698 4 0.668 0.02688 0.06 100 120 iocetamic acid -0.344 4 -0.668 0.02741 0 75 121 alpha-estradiol 0.466 16 0.353 0.02747 0.2558 81 122 DL-thiorphan 0.799 2 0.883 0.02789 0.1029 100 123 dipyridamole 0.663 6 0.558 0.02827 0.0872 100 124 methazolamide 0.671 4 0.664 0.02865 0.0283 100 125 harmine 0.632 4 0.661 0.03032 0.084 75 126 trihexyphenidyl -0.427 3 -0.754 0.03047 0.0902 100 127 sulfametoxydiazine 0.714 4 0.66 0.03077 0.0849 100 128 clemizole 0.682 5 0.6 0.03104 0.0788 100 129 naproxen -0.218 9 -0.456 0.03155 0.0915 55 130 clorsulon -0.533 4 -0.657 0.03173 0.078 75 131 Prestwick-665 0.675 5 0.599 0.03192 0.0488 100 132 meteneprost -0.4 4 -0.654 0.03338 0.1797 75 133 halcinonide 0.607 5 0.595 0.03362 0.0584 100 134 triflupromazine -0.372 4 -0.653 0.03364 0.0172 75 135 dequalinium chloride 0.697 4 0.653 0.03374 0.0797 100 136 chlortalidone -0.398 4 -0.651 0.03481 0.0651 75 137 sulconazole 0.716 4 0.65 0.03553 0.1438 100 138 ceforanide -0.41 4 -0.649 0.03567 0.0659 75 139 6-azathymine 0.716 4 0.647 0.03724 0.0507 100 140 nifenazone -0.318 5 -0.581 0.03831 0.0395 80 141 glafenine 0.63 4 0.645 0.03841 0.0709 100 142 ketotifen -0.407 4 -0.643 0.03863 0.1148 75 143 trioxysalen 0.736 4 0.642 0.04018 0.1044 100 144 oxybenzone -0.366 4 -0.64 0.04024 0.1127 75 145 alsterpaullone 0.778 3 0.726 0.04046 0.2791 100 146 scriptaid 0.691 3 0.725 0.04054 0.2685 100 147 homatropine -0.246 5 -0.577 0.04095 0.0633 60 148 protriptyline 0.604 4 0.639 0.04132 0.0894 75 149 copper sulfate -0.21 4 -0.637 0.04176 0.0294 75 150 acepromazine 0.69 4 0.637 0.04245 0.0444 100 151 ampyrone -0.352 5 -0.572 0.0433 0.0694 80 152 withaferin A 0.646 4 0.635 0.04337 0.3211 100 153 ebselen 0.73 3 0.72 0.04351 0.196 100 154 morantel 0.727 5 0.575 0.04376 0.0686 100 155 benzocaine -0.374 4 -0.634 0.04386 0.1611 75 156 eucatropine 0.592 6 0.526 0.04483 0.1583 100 157 cloperastine 0.657 6 0.526 0.04531 0.2643 100 158 guanadrel -0.398 5 -0.567 0.046 0.1812 60 159 acetylsalicylic acid 0.439 13 0.365 0.04631 0.096 76 160 beta-escin 0.602 6 0.524 0.04674 0.1989 100 161 hexestrol 0.685 4 0.629 0.04697 0.1714 100 162 dextromethorphan 0.571 4 0.628 0.04812 0.0522 75 163 acemetacin -0.383 4 -0.626 0.04824 0.1716 75