(gH) version 6.33 fonctions d'aides : lit() fqt() fql() ic() fapprox() chi2() fcomp() datagh() taper aide() pour revoir cette liste + ========================================== + + + + ETUDE DE GENES DIFFERENTIELLEMENT EXPRIMES + + + + ========================================== + [1] "data.frame" GeneID Length CT.Expression DK.Expression log2FoldChange.DK.CT. Padj Up.Down.Regulation Pvalue 1 AT4G32100 369 0.1529922 0.1651327 0.110168051 7.567004e-01 * 5.827073e-01 2 AT5G16970 1441 7153.2895971 3588.6724626 -0.995156595 6.602693e-83 * 8.017436e-85 3 AT2G43120 1338 955.6441868 560.6417956 -0.769394262 2.726071e-17 * 1.895308e-18 4 AT1G30814 1153 0.3353947 0.3373702 0.008472539 9.891185e-01 * 9.760654e-01 5 AT3G18710 1965 114.7097207 96.0847338 -0.255608518 3.501411e-01 * 1.820637e-01 6 AT4G25880 2948 3513.9461740 3186.6496125 -0.141051696 4.749799e-02 * 1.642994e-02 Cellular.Component 1 2 GO:0005634//nucleus;GO:0005654//nucleoplasm;GO:0005829//cytosol 3 GO:0005634//nucleus;GO:0005829//cytosol;GO:0005886//plasma membrane 4 5 GO:0009506//plasmodesma 6 GO:0009507//chloroplast Molecular.Function 1 GO:0016757//transferase activity, transferring glycosyl groups 2 GO:0032440//2-alkenal reductase [NAD(P)] activity;GO:0016491//oxidoreductase activity 3 GO:0046872//metal ion binding;GO:0030414//peptidase inhibitor activity 4 5 GO:0070696//transmembrane receptor protein serine/threonine kinase binding;GO:0004842//ubiquitin-protein transferase activity 6 GO:0003729//mRNA binding;GO:0003723//RNA binding Biological.Process 1 2 GO:0006979//response to oxidative stress;GO:0046686//response to cadmium ion 3 GO:0042742//defense response to bacterium 4 5 GO:0010200//response to chitin;GO:0016567//protein ubiquitination 6 GO:0006417//regulation of translation log2FC l2 1 0.110168051 0.110168051 2 -0.995156595 -0.995156595 3 -0.769394262 -0.769394262 4 0.008472539 0.008472539 5 -0.255608518 -0.255608518 6 -0.141051696 -0.141051696 * DOWN UP * 22264 34 32 Down 0 999 0 Up 0 0 389 l2 UpDown verifUpDown 397 -1.070422 * DOWN 908 -1.061686 * DOWN 1042 1.232028 * UP 1723 1.070844 * UP 1814 -1.082829 * DOWN 2477 -1.227106 * DOWN TRI A PLAT DE : SENS DE REGULATION (ordre des modalités) * DOWN UP Total Effectif 22264 1033 421 23718 Cumul Effectif 22264 23297 23718 23718 Frequence (en %) 94 4 2 100 Cumul fréquences 94 98 100 100 VARIABLE : SENS DE REGULATION (par fréquence décroissante) * DOWN UP Total Effectif 22264 1033 421 23718 Cumul Effectif 22264 23297 23718 23718 Frequence (en %) 94 4 2 100 Cumul fréquences 94 98 100 100 [1] "*" "DOWN" "UP" Extrait des données (1454 x 7) sur 5 lignes et 5 colonnes ========================================================== GeneID CTexpr DKexpr l2 Padj 39 AT2G26900 4648.2993 2115.8099 -1.135493 2.175345e-88 50 AT4G27830 988.7691 405.5703 -1.285682 9.552831e-47 62 AT1G79700 950.2953 2659.6424 1.484784 1.989850e-67 78 AT4G23200 437.1098 199.5955 -1.130916 5.182012e-19 91 AT4G23670 2034.7266 864.8935 -1.234241 2.663440e-33 [...] GeneID CTexpr DKexpr l2 Padj 23653 AT5G24420 119.5332 39.19996 -1.608487 4.807471e-11 23660 AT3G60530 929.4581 2680.35928 1.527965 5.660906e-105 23668 AT5G02940 543.6675 211.27747 -1.363586 5.614794e-24 23699 AT1G32080 3337.3640 904.81691 -1.883011 2.692134e-106 23703 AT1G07010 793.0101 212.39532 -1.900587 6.399449e-56 Extrait des données (6 x 7) sur 5 lignes et 5 colonnes ======================================================= GeneID CTexpr DKexpr l2 Padj 301 AT2G05100 21682.8576 3012.409 -2.847565 0 552 AT1G08630 1695.2162 10634.670 2.649234 0 4884 AT1G19540 138.0587 2311.616 4.065548 0 5886 AT3G47340 4432.0561 52436.628 3.564527 0 6180 AT4G33010 66891.7967 11573.409 -2.531015 0 [...] GeneID CTexpr DKexpr l2 Padj 552 AT1G08630 1695.2162 10634.670 2.649234 0 4884 AT1G19540 138.0587 2311.616 4.065548 0 5886 AT3G47340 4432.0561 52436.628 3.564527 0 6180 AT4G33010 66891.7967 11573.409 -2.531015 0 6501 AT4G35770 3912.0028 46160.271 3.560672 0 GENES différentiellement exprimés ================================= liste des 244 gènes GeneID l2 Padj 164 AT5G08760 -3.072080 1.768062e-22 214 AT4G05110 -3.223882 5.435869e-11 253 AT1G49570 2.145247 5.093901e-26 301 AT2G05100 -2.847565 0.000000e+00 411 AT3G01550 -3.319889 9.247247e-11 552 AT1G08630 2.649234 0.000000e+00 683 AT1G44000 -2.240393 3.461525e-82 686 AT2G35960 -2.060010 5.594986e-21 771 AT5G05270 -2.548942 1.614745e-22 968 AT4G24230 2.087782 1.319489e-272 993 AT3G09520 -2.562872 3.858563e-37 1242 AT2G36750 -5.442704 5.442821e-101 1418 AT5G56850 -2.562781 1.785623e-57 1666 AT2G36970 -2.250946 1.090658e-31 1672 AT3G51240 -2.427203 4.273080e-25 1680 AT3G53830 -2.237841 2.230126e-29 1682 AT1G61300 -2.337062 3.429718e-76 1746 AT2G16890 -2.481068 7.145420e-47 1948 AT1G79410 -2.453444 3.021746e-65 1959 AT2G42975 -2.166292 8.998987e-21 1969 AT3G14810 -2.204413 9.375031e-34 2037 AT3G28070 -2.232428 1.666067e-41 2202 AT2G04790 -2.082891 1.750361e-21 2303 AT4G34135 -2.122392 6.800052e-163 2335 AT3G21890 -2.991302 1.571427e-19 2448 AT5G67370 -2.188725 7.121505e-87 2467 AT1G10370 -2.046112 4.533115e-15 2530 AT5G14470 2.127913 2.677615e-21 2547 AT1G76680 -2.583815 1.170271e-246 2837 AT4G04840 -3.508871 8.527103e-119 2855 AT5G58770 -3.007322 2.958690e-66 2884 AT4G17090 -4.131325 1.981180e-131 3175 AT5G55620 -2.352531 2.917442e-83 3284 AT2G29350 -2.975422 2.327922e-16 3336 AT3G06145 -2.234764 9.280983e-17 3442 AT1G69730 -3.616891 1.183785e-108 3484 AT3G21760 -2.782683 4.926811e-166 3723 AT5G59130 -3.661996 6.439411e-47 3844 AT1G28610 -2.702161 7.896670e-22 3902 AT1G07050 -2.099707 4.988347e-41 3910 AT3G10840 -2.379168 6.469999e-33 3940 AT4G25480 -2.261290 3.920666e-11 3948 AT4G13810 -2.096914 6.879080e-29 3954 AT5G14920 2.107948 1.014897e-287 3988 AT3G48320 -2.308654 4.370272e-56 4021 AT4G24700 -2.467366 5.028791e-15 4173 AT4G00165 -2.755934 5.243144e-111 4212 AT1G15040 4.050570 3.007596e-96 4314 AT1G10360 -2.125720 1.997848e-26 4395 AT1G32520 -2.426314 1.031332e-28 4447 AT1G32780 -2.867741 3.266750e-19 4488 AT4G37220 4.197008 5.589441e-170 4596 AT2G36885 -2.077387 8.435778e-33 4693 AT4G36850 3.618444 1.133500e-121 4884 AT1G19540 4.065548 0.000000e+00 4897 BGI_novel_G000134 -4.599017 3.246149e-28 4960 AT2G36590 -3.427112 2.704856e-26 5260 AT4G24350 -3.795026 1.593635e-71 5264 AT4G38860 -3.102064 6.081799e-84 5325 AT1G64900 -2.032007 5.765328e-127 5422 AT1G60590 -2.281201 1.849763e-15 5461 AT1G15125 3.643676 6.108322e-102 5614 AT3G62950 3.171761 1.148757e-63 5617 AT3G26570 -2.527359 6.162726e-293 5654 AT2G15490 -2.353945 1.637444e-12 5679 AT4G14400 -2.225848 1.984570e-26 5848 AT5G08640 -3.357326 3.583828e-39 5886 AT3G47340 3.564527 0.000000e+00 5974 AT3G48360 3.971043 3.394556e-140 6037 AT3G07350 2.450803 4.376930e-50 6109 AT5G24150 -5.317521 2.335975e-120 6154 AT5G11410 -2.193993 5.430282e-19 6178 AT5G24820 3.188732 1.501952e-12 6180 AT4G33010 -2.531015 0.000000e+00 6278 AT1G65490 -2.421020 9.752366e-40 6443 AT5G24155 -3.370722 1.371180e-20 6501 AT4G35770 3.560672 0.000000e+00 6659 AT5G41080 2.191222 2.940125e-179 6694 AT3G23110 -2.159448 5.506123e-15 6850 AT5G15120 2.555553 9.356774e-19 6925 AT2G04039 -3.000719 4.659262e-91 6927 AT5G19120 2.039769 1.106867e-253 7239 AT2G34080 -2.415473 1.525621e-22 7259 AT3G44990 -2.358443 7.295644e-114 7329 AT4G09350 -3.703547 2.964144e-45 7461 AT5G07440 2.352383 0.000000e+00 7472 AT5G62430 -3.111849 1.951094e-50 7537 AT5G03555 -3.157597 1.244671e-132 7672 AT3G16250 -2.050007 8.839397e-89 7691 AT1G10657 -3.049063 1.079101e-24 8014 AT3G48390 2.619692 6.088092e-123 8023 AT4G12830 -2.483678 2.940921e-71 8087 AT2G32530 -2.227485 7.048502e-127 8088 AT2G46340 -2.456338 0.000000e+00 8739 AT5G05580 -2.712390 1.360162e-67 8789 AT2G20670 2.786626 0.000000e+00 8907 AT5G45950 -2.268770 1.807174e-59 8924 AT5G10760 -2.462478 1.225741e-50 9006 AT1G56510 -2.266794 6.452365e-172 9070 AT5G42760 -3.773168 1.063491e-48 9089 AT1G19530 4.196681 0.000000e+00 9103 AT2G29170 -2.217291 3.227983e-11 9134 AT3G04210 -2.067984 1.740296e-58 9415 AT1G62770 2.624830 7.461050e-136 9582 AT3G27690 -3.227655 0.000000e+00 9593 AT2G31380 -3.678492 3.126634e-173 9652 AT4G32480 2.046370 2.655750e-155 9714 AT4G26850 -2.296495 0.000000e+00 9842 AT4G16880 -3.954251 2.280389e-58 9939 AT3G28740 -2.721110 0.000000e+00 10385 AT2G17880 2.351902 4.121956e-146 10406 AT3G04140 -2.610543 2.491017e-85 10487 AT4G15630 -2.647349 5.381116e-90 10499 AT3G13450 2.114562 1.176790e-43 10661 AT4G29110 -2.127038 6.127869e-53 10786 AT1G76080 -2.091867 7.333325e-227 10804 AT1G10070 3.383866 0.000000e+00 10855 AT4G09750 -2.318600 2.447526e-118 10887 AT5G51720 -2.359012 1.916472e-65 10892 AT3G48200 -2.203237 2.962914e-196 10955 AT3G55630 -2.579340 2.412317e-71 10967 AT5G49740 -4.016331 7.761932e-27 11061 AT1G27480 -2.001199 9.822315e-86 11098 AT4G26150 -2.492003 3.400403e-116 11323 AT4G27030 -4.163309 7.276194e-205 11412 AT1G26761 -2.402864 1.333384e-39 11829 AT1G49500 2.211864 3.869285e-18 12047 AT5G52170 2.199759 7.695812e-21 12052 AT1G55910 -2.092848 1.796475e-43 12139 AT3G44970 -2.188263 2.661378e-78 12212 AT1G03090 2.459727 0.000000e+00 12351 AT1G77210 2.220987 2.177512e-191 12390 AT2G32680 -2.604497 4.799135e-16 12423 AT2G19800 2.475851 0.000000e+00 12426 AT1G23740 -2.686667 2.828865e-262 12573 AT5G02830 -2.421463 1.321632e-114 12740 AT4G34030 2.331943 1.030432e-274 12946 AT1G72060 2.924350 9.158864e-161 13122 AT3G52740 -2.601628 1.602087e-31 13219 AT4G23990 -2.475814 1.135503e-23 13364 AT4G39675 2.985960 1.436078e-53 13467 AT1G66390 -2.270075 1.542703e-14 13701 AT2G36870 -2.523444 3.753310e-35 13732 AT1G76955 -2.400278 4.311590e-11 14104 AT5G60900 -2.105223 8.601341e-12 14187 BGI_novel_G000108 -2.581780 6.106621e-73 14202 AT1G50040 2.175209 1.015243e-32 14432 AT3G02550 2.338888 2.580123e-93 14472 AT5G38980 -2.713851 3.310711e-124 14992 AT4G02520 2.053031 3.611962e-138 15052 AT5G49730 -2.601503 2.827984e-161 15251 AT5G13930 -3.716147 4.373958e-181 15419 AT2G39250 -2.460551 3.794591e-14 15466 AT5G44260 2.022976 2.206089e-231 15508 AT3G48610 -2.192658 2.656127e-105 15611 AT4G04850 -2.596353 9.338800e-151 15657 AT1G29920 -2.787988 0.000000e+00 15687 AT5G64850 -2.054250 1.383105e-64 15837 AT3G15354 -3.082809 8.709435e-195 15863 AT1G72930 -2.748717 3.808585e-119 15944 AT4G08555 -3.460542 3.826179e-37 16080 AT1G13930 -2.070463 9.710113e-238 16138 AT5G61420 -2.049255 1.333612e-24 16269 AT3G09450 -5.951979 1.142693e-50 16288 AT1G70820 -2.475846 8.719969e-190 16335 AT1G05680 -2.991872 5.801631e-34 16558 AT1G72030 -2.074160 1.473972e-47 16578 AT3G50800 -3.737179 9.237225e-13 16873 AT5G63160 3.315311 0.000000e+00 16911 AT4G37925 -2.640875 2.237312e-195 17102 AT1G79360 2.966345 1.680781e-94 17122 AT1G01390 -2.142642 4.421428e-26 17212 AT4G02420 -2.656686 7.094276e-31 17318 AT1G67265 3.030894 3.849260e-15 17359 AT1G64500 -3.111459 1.222208e-159 17401 AT3G62410 -2.473324 3.511834e-228 17572 AT3G21670 -3.553176 3.620079e-103 17628 AT1G61800 -2.580300 8.948194e-16 17749 AT2G46830 -2.545318 2.866896e-40 17764 AT3G22840 -3.957820 3.966828e-218 17915 AT4G12320 -5.262502 9.234961e-290 17957 AT2G19650 -2.534383 5.092541e-74 18083 AT5G56870 2.017970 0.000000e+00 18125 AT5G19240 -2.227149 7.857550e-107 18130 AT1G14345 -2.784717 3.515427e-137 18265 AT5G48485 -2.248684 6.534343e-16 18460 AT3G02040 2.272738 2.572171e-232 18486 AT3G28270 -3.882658 7.708738e-30 18824 AT4G00050 -2.495965 3.240654e-124 18956 AT1G19670 -2.953837 2.189547e-24 18990 AT4G15233 2.090876 1.799490e-148 19381 AT4G26288 2.933862 2.757009e-96 19436 AT2G30766 -2.886849 1.887181e-17 19437 AT3G61220 -2.922299 2.166767e-192 19495 AT5G19890 2.042670 3.386436e-76 19662 AT4G28040 2.143109 6.593871e-127 19731 AT2G36800 -2.304820 3.029423e-169 19811 AT5G24120 -3.073189 6.640322e-163 19885 AT3G56290 -4.082090 2.006172e-100 19959 AT1G02390 -2.251914 5.149441e-24 19963 AT5G54470 -2.807880 2.902507e-12 20015 AT2G29450 -2.287790 9.671523e-139 20322 AT3G21560 -2.357052 2.782647e-101 20331 AT4G28250 -2.278853 3.417731e-43 20496 AT1G12244 -4.633755 1.096053e-21 20622 AT3G01440 -2.376805 2.890953e-68 20779 AT5G18170 2.141498 4.640042e-252 21038 AT5G38430 -2.579191 0.000000e+00 21284 AT3G11090 -2.007535 2.615445e-18 21357 AT4G27820 -2.120207 6.486234e-74 21397 AT3G43850 3.276006 2.302237e-22 21427 AT5G57655 2.065272 0.000000e+00 21629 AT3G01060 -2.811132 1.704286e-108 21697 AT3G19480 -2.061177 9.347406e-77 21709 AT3G17609 -3.861432 6.517707e-44 21924 AT4G34610 -2.316376 3.229416e-63 21996 AT5G13770 -2.263174 1.215056e-137 22013 BGI_novel_G000001 2.441200 4.969352e-86 22037 AT3G44450 -5.207879 1.635530e-35 22044 AT1G75100 -2.007649 9.764078e-79 22054 BGI_novel_G000135 -3.941587 8.115330e-23 22185 AT1G21400 2.485883 0.000000e+00 22222 AT3G02830 -2.658709 9.502572e-74 22288 AT5G21100 -2.880963 3.095848e-92 22311 AT3G25770 -2.081242 1.035453e-89 22341 AT2G44130 2.272292 2.369498e-119 22429 AT4G22200 -2.041218 4.920427e-16 22482 AT5G26150 -2.172287 1.675237e-17 22557 AT5G46490 -2.026534 2.215252e-63 22683 AT1G17100 -2.180088 1.049921e-137 22749 AT5G59920 -2.038913 5.119676e-72 22782 AT2G29090 -2.109229 4.982181e-98 22787 AT2G46790 -2.379407 2.535570e-53 22884 AT2G21320 -2.623016 6.589637e-26 22913 AT2G29650 -2.261607 5.495437e-140 22968 AT1G10960 -2.339913 5.954750e-260 23027 AT3G57020 -3.009344 3.355015e-200 23108 AT5G43630 -3.143383 2.388637e-291 23325 AT1G12370 -2.104290 9.713024e-13 23371 AT4G32980 -2.700565 6.206760e-83 23481 AT5G64170 -2.280124 9.918271e-204 23525 AT2G37970 -2.393158 6.587448e-127 23536 AT2G15020 -6.606376 3.687994e-103 23594 AT5G23060 -2.216182 1.211680e-201