LIST OF SUPPLEMENTAL FILES Supplemental file 1. Primer sets used for qrt-pcr. Supplemental file 2. All 1305 differentially expressed genes. Supplemental file 3. All 306 mapped IDs collected by IPA program. Supplemental file 4. All gene lists used for four networks. Supplemental file 5. Four gene networks. Supplemental file 6. The functions and main focused genes in each network.
Supplemental file 1 GenBank Forward Primer Reverse Primer BX932962 GTA CAA CCA CGT TGG GCA GA CTC TCG CGT TTC CTT TGA GG M60853 TTT TGG CTA CCA GTC CAG CA TTC GCA AGT GTT CCC CAG TA BX933888 CTG GGA TCC CTC CAG AGC TA CCA TTC ACT GGA GCA CCA AA BX933728 GCA AAG CAC CAT CCC AAA TA TAT TGA GGC GCT GAC TCC TG BX931297 TTG TGG CCT ACC CCA GAT GT GGA TGG GAC TTT CCA GAG CA CR352775 GGC CTT GAA TGA CCA TCA TGT AAC AGC AGC AGG AAC AGT GC BX933478 CCT GTG CAA GGT GTC CAG TG CCC AAT GGC CAT ACA GTT CA BX935456 CGA GGC CAT CAA CTT CCT TC TCC ACA TGA CGC ACA TAC CC BX931599 CTG TTT CCT GAC CGC AGT TC AGC ACA AAC TCC GCC ATT TT CR385566 CGC GCT CTA CGA CTA CAT GC CTG GGT GGT GAT CTC GGT CT M87294 GGT GCT GAC TTT CGC CTT GT GCC TGG TGA TGA GGT TGA TG M80584 TCC CAC TGA GCA GCT TCT GTA CCA GAG AGA TAT CCG CAG CA M64990 TGC TCC CCT GAG TAC TGG AA GCC TCT GTG GGT TCA GGA TT AB109635 GGC ACC AAC TTG CTA CCA CA GCT GCA AGA GCT GCC ATT AG BX936211 CCA GCT GTC CTC CTT GGA AT AGG GAG AGG AAG ACG TGC TG X87609 CCA CCT GAG AAA AGC GAC CT ACA TCG ACC TCT GCC AAC CT D87992 TGC AGC ACT GAG ACC TGG AT CAG TTG CTG CGG ATG AAG TC AF505881 CCA GCT ACA TCT CCC ACC TG TCT GTT TGG GCT GGG AGT TC
Supplemental file 2 Agilent ID GenBank ID Day1 Day2 Day3 Day4 Mean Std A_87_P015566 CR387791 2.96 2.73 3.10 4.29 3.27 0.70 A_87_P037775 AF218056 2.72 2.79 3.61 3.84 3.24 0.57 A_87_P022551 BX934540 2.76 3.04 3.18 3.56 3.14 0.33 A_87_P027905 BU409518 2.56 2.97 3.13 3.82 3.12 0.53 A_87_P026437 BU453148 3.01 2.98 2.78 3.07 2.96 0.12 A_87_P022896 BX933728 2.32 2.58 3.21 3.45 2.89 0.53 A_87_P003954 TC208637 2.85 2.68 2.77 2.83 2.78 0.07 A_87_P024740 BX929398 3.06 2.56 2.85 2.50 2.74 0.26 A_87_P027600 BU419559 2.95 2.59 2.42 2.69 2.66 0.22 A_87_P023260 BX932962 1.23 2.12 3.30 3.93 2.64 1.21 A_87_P008835 X74946 2.21 2.47 2.96 2.88 2.63 0.35 A_87_P039906 2.45 2.43 2.29 2.92 2.52 0.27 A_87_P021574 BX950566 2.28 2.11 2.72 2.86 2.49 0.36 A_87_P023859 BX931599 1.70 2.29 2.87 3.06 2.48 0.62 A_87_P020917 CK609876 2.29 2.28 2.24 2.92 2.43 0.33 A_87_P024169 BX930823 1.92 2.25 2.52 2.93 2.41 0.43 A_87_P032858 BU218870 2.26 2.20 2.46 2.67 2.40 0.21 A_87_P009321 M60853 1.48 2.00 2.77 3.31 2.39 0.81 A_87_P001336 TC224576 2.21 2.03 2.60 2.65 2.37 0.30 A_87_P036574 AJ720191 2.10 2.03 2.55 2.51 2.30 0.27 A_87_P009827 D00844 2.47 2.11 2.22 2.31 2.28 0.15 A_87_P032486 BU228143 1.68 2.24 2.60 2.50 2.26 0.41 A_87_P013584 CR391272 2.14 1.76 2.04 2.97 2.23 0.52 A_87_P025957 BU464906 1.97 2.01 2.36 2.47 2.20 0.25 A_87_P013828 CR390951 1.66 2.22 2.02 2.76 2.17 0.46 A_87_P010690 CV853696 1.50 1.89 2.18 3.01 2.14 0.64 A_87_P022724 BX934148 2.03 2.14 1.85 2.52 2.14 0.28 A_87_P027756 BU414164 2.10 1.99 2.22 2.17 2.12 0.10 A_87_P010766 CR733294 2.36 2.09 2.11 1.84 2.10 0.21 A_87_P016578 CR386293 1.89 2.09 2.04 2.30 2.08 0.17 A_87_P024233 BX930609 1.96 1.92 2.16 2.23 2.07 0.15 A_87_P017524 CR354135 1.67 1.84 2.25 2.50 2.06 0.38 A_87_P021552 BX950609 1.80 1.93 2.15 2.37 2.06 0.25 A_87_P023167 BX933162 1.94 1.78 2.26 2.18 2.04 0.22 A_87_P021100 CF252431 1.09 1.76 2.44 2.80 2.02 0.76 A_87_P023009 BX933478 0.81 1.72 2.47 3.00 2.00 0.95 A_87_P023912 BX931479 1.67 1.72 2.08 2.52 2.00 0.39 A_87_P023980 BX931297 0.96 1.41 2.70 2.91 1.99 0.96 A_87_P039024 2.02 1.71 1.90 2.25 1.97 0.23
A_87_P012394 CR406979 1.64 1.73 1.85 2.58 1.95 0.43 A_87_P002118 TC223177 1.77 1.82 1.97 2.18 1.94 0.18 A_87_P007504 TC194705 1.81 1.94 2.11 1.88 1.94 0.13 A_87_P011083 CR524171 1.99 1.74 1.94 2.04 1.93 0.13 A_87_P030044 BU312594 1.69 1.35 1.86 2.77 1.92 0.61 A_87_P001187 TC224887 1.83 1.40 1.66 2.75 1.91 0.59 A_87_P030253 BU303631 2.18 1.63 1.71 2.06 1.89 0.27 A_87_P003998 TC208101 1.91 1.90 1.88 1.87 1.89 0.02 A_87_P011987 CR522896 1.20 1.62 2.26 2.47 1.89 0.58 A_87_P017854 CR353565 1.54 1.47 2.04 2.49 1.88 0.48 A_87_P037391 AJ416889 1.23 2.21 2.08 1.98 1.87 0.44 A_87_P016272 CR386734 1.27 1.83 1.76 2.55 1.85 0.53 A_87_P035182 AY376896 1.82 1.49 1.73 2.35 1.85 0.36 A_87_P038033 AB235921 1.69 1.63 1.86 2.19 1.84 0.25 A_87_P011297 CR523896 1.95 1.70 1.91 1.81 1.84 0.11 A_87_P024446 BX930081 1.82 1.75 1.67 2.12 1.84 0.20 A_87_P014322 CR390178 1.85 1.87 1.84 1.74 1.83 0.06 A_87_P031951 BU239729 1.46 1.57 1.80 2.43 1.81 0.43 A_87_P038018 AF019142 1.54 1.41 1.92 2.36 1.81 0.43 A_87_P007324 TC196293 1.70 1.71 1.69 2.08 1.79 0.19 A_87_P028983 BU364529 1.86 1.74 1.50 2.01 1.78 0.22 A_87_P018173 CR353093 1.53 1.48 1.80 2.27 1.77 0.36 A_87_P024595 BX929774 1.86 1.89 2.01 1.31 1.77 0.31 A_87_P010756 CR733321 2.08 2.09 1.75 1.09 1.75 0.47 A_87_P009299 M80584 1.22 1.45 1.88 2.47 1.75 0.55 A_87_P000710 TC226301 1.28 1.31 1.86 2.53 1.74 0.59 A_87_P039004 2.08 1.79 1.37 1.72 1.74 0.29 A_87_P023415 BX932640 1.91 1.53 2.06 1.44 1.73 0.30 A_87_P015286 CR388715 1.68 1.48 1.81 1.94 1.73 0.20 A_87_P017476 CR354199 1.92 1.70 1.51 1.64 1.69 0.17 A_87_P006466 TC202170 1.87 1.36 1.71 1.82 1.69 0.23 A_87_P015946 CR387249 1.12 1.46 1.96 2.20 1.69 0.49 A_87_P004165 TC207106 1.97 1.78 1.40 1.56 1.68 0.25 A_87_P015837 CR387407 2.16 1.88 1.53 1.12 1.67 0.45 A_87_P034618 BU111156 1.38 1.25 1.72 2.33 1.67 0.48 A_87_P012981 CR406131 1.38 1.42 1.76 2.12 1.67 0.35 A_87_P016541 CR386350 1.89 1.66 1.81 1.27 1.66 0.28 A_87_P007749 TC192570 0.76 1.04 1.75 3.08 1.66 1.04 A_87_P023147 BX933215 1.48 1.65 1.73 1.74 1.65 0.12 A_87_P002704 TC220207 1.75 1.72 1.39 1.75 1.65 0.18 A_87_P037582 AF505881 1.09 1.40 1.75 2.33 1.64 0.53
A_87_P018374 CR352775 0.72 0.97 2.13 2.74 1.64 0.95 A_87_P011862 CR523063 1.99 1.44 1.47 1.65 1.64 0.25 A_87_P022782 BX933997 2.05 1.78 1.39 1.20 1.61 0.39 A_87_P005953 TC203085 1.27 1.44 1.79 1.92 1.61 0.30 A_87_P018964 CO773665 1.51 1.51 1.55 1.82 1.60 0.15 A_87_P029786 BU323839 1.93 1.60 1.38 1.43 1.58 0.25 A_87_P037168 AJ719326 1.38 1.23 1.16 2.53 1.58 0.64 A_87_P024345 BX930352 1.02 1.27 1.78 2.23 1.58 0.54 A_87_P027330 BU425441 1.36 1.16 1.67 2.11 1.57 0.41 A_87_P020924 CK609560 1.72 1.59 1.39 1.58 1.57 0.14 A_87_P025348 BU482879 1.30 1.48 1.41 2.06 1.56 0.34 A_87_P021702 BX950302 1.10 1.48 1.73 1.94 1.56 0.36 A_87_P012666 CR406608 2.00 1.33 1.51 1.36 1.55 0.31 A_87_P003999 TC208100 1.79 1.47 1.56 1.36 1.54 0.18 A_87_P037962 AF051399 1.07 1.25 1.65 2.20 1.54 0.50 A_87_P022913 BX933699 1.78 1.58 1.50 1.29 1.54 0.20 A_87_P010865 CR732853 0.93 0.99 2.08 2.16 1.54 0.67 A_87_P020661 CN229037 1.07 1.38 1.84 1.84 1.53 0.38 A_87_P013966 CR390728 1.59 1.68 1.54 1.31 1.53 0.16 A_87_P025642 BU473304 1.63 1.52 1.43 1.52 1.53 0.08 A_87_P037142 AJ719361 1.90 1.62 1.12 1.43 1.52 0.33 A_87_P018403 CR352731 1.59 1.25 1.39 1.84 1.52 0.26 A_87_P015238 CR388784 1.43 1.45 1.46 1.71 1.51 0.13 A_87_P037453 AJ309540 1.63 1.13 1.03 2.26 1.51 0.57 A_87_P021254 CD734450 1.28 1.47 1.85 1.41 1.50 0.24 A_87_P022684 BX934220 1.66 1.64 1.46 1.26 1.50 0.19 A_87_P024649 BX929635 2.07 1.65 1.45 0.81 1.49 0.53 A_87_P024676 BX929570 1.43 1.35 1.30 1.88 1.49 0.27 A_87_P016334 CR386655 1.55 1.28 1.30 1.83 1.49 0.26 A_87_P030943 BU275011 1.29 1.48 1.21 1.96 1.48 0.34 A_87_P007437 TC195397 1.13 1.27 1.44 2.08 1.48 0.42 A_87_P006971 TC199062 1.57 1.45 1.40 1.47 1.47 0.07 A_87_P016951 CR385747 1.97 1.39 1.38 1.15 1.47 0.35 A_87_P030492 BU294403 1.61 1.17 1.23 1.85 1.47 0.32 A_87_P002700 TC220248 1.87 1.31 1.19 1.46 1.46 0.29 A_87_P009315 M63560 1.27 1.15 1.44 1.90 1.44 0.33 A_87_P037596 AF468789 1.28 1.48 1.62 1.35 1.43 0.15 A_87_P009419 L77700 1.45 1.27 1.55 1.45 1.43 0.12 A_87_P005888 TC203196 1.21 1.66 1.56 1.27 1.42 0.22 A_87_P012194 CR407258 1.03 1.11 1.60 1.96 1.42 0.44 A_87_P015090 CR389004 2.21 1.42 0.89 1.13 1.41 0.57
A_87_P026245 BU457356 1.01 1.18 1.37 2.08 1.41 0.47 A_87_P027329 BU425441 1.02 1.05 1.41 2.15 1.41 0.53 A_87_P028388 BU384445 0.86 1.65 1.48 1.64 1.41 0.37 A_87_P021297 CD729818 1.81 1.34 1.12 1.34 1.40 0.29 A_87_P021410 CA786344 0.89 1.94 1.48 1.27 1.40 0.44 A_87_P022828 BX933888-0.23 1.18 1.95 2.68 1.39 1.24 A_87_P018089 CR353215 1.02 1.31 1.57 1.66 1.39 0.29 A_87_P036732 AJ719970 1.11 1.22 1.41 1.79 1.38 0.30 A_87_P022542 BX934557 1.49 1.30 1.29 1.45 1.38 0.10 A_87_P017834 CR353602 1.19 1.34 1.51 1.48 1.38 0.15 A_87_P033288 BU207386 0.50 1.26 1.55 2.19 1.37 0.70 A_87_P010565 CV857644 1.21 1.17 1.30 1.81 1.37 0.30 A_87_P041641 1.47 1.58 1.40 1.02 1.37 0.24 A_87_P023676 BX932051 1.83 1.20 1.22 1.21 1.37 0.31 A_87_P041959 1.19 0.93 1.40 1.90 1.35 0.41 A_87_P021778 BX936162 1.13 1.46 1.69 1.13 1.35 0.27 A_87_P015139 CR388926 1.04 1.43 1.49 1.44 1.35 0.21 A_87_P010123 CV861063 1.00 1.28 1.24 1.87 1.35 0.37 A_87_P025997 BU463624 0.82 1.32 1.58 1.67 1.35 0.38 A_87_P007918 TC190629 0.92 1.29 1.67 1.49 1.34 0.32 A_87_P010267 CV860278 1.17 1.24 1.18 1.79 1.34 0.30 A_87_P024039 BX931136 1.25 1.06 1.34 1.73 1.34 0.28 A_87_P011793 CR523171 1.68 1.03 1.37 1.29 1.34 0.27 A_87_P010918 CR524405 1.53 1.50 1.25 1.06 1.34 0.23 A_87_P022791 BX933973 1.62 1.20 1.39 1.13 1.33 0.22 A_87_P007719 TC192774 1.23 1.25 1.34 1.49 1.33 0.12 A_87_P030818 BU280333 1.08 0.98 1.26 1.99 1.33 0.46 A_87_P014248 CR390293 2.01 1.14 1.32 0.83 1.32 0.50 A_87_P010784 CR733243 1.34 1.20 1.41 1.34 1.32 0.09 A_87_P011202 CR524023 1.39 0.93 1.20 1.76 1.32 0.35 A_87_P021610 BX950498 1.34 1.58 1.11 1.26 1.32 0.20 A_87_P031966 BU239419 1.18 1.16 0.95 1.98 1.32 0.45 A_87_P027482 BU421860 1.03 1.29 1.21 1.75 1.32 0.30 A_87_P002760 TC219845 1.44 1.36 1.31 1.14 1.31 0.13 A_87_P017838 CR353595 1.65 1.36 1.16 1.06 1.31 0.26 A_87_P017257 CR385236 1.55 1.23 1.37 1.07 1.31 0.20 A_87_P008683 Z94720 1.42 0.97 1.28 1.55 1.30 0.25 A_87_P014709 CR389608 1.65 1.12 1.38 1.06 1.30 0.27 A_87_P016252 CR386770 0.38 1.51 2.09 1.24 1.30 0.71 A_87_P027129 BU433063 1.49 1.25 1.36 1.10 1.30 0.16 A_87_P003317 TC215321 0.56 0.64 1.40 2.60 1.30 0.94
A_87_P008749 Y09235 1.48 1.11 1.19 1.41 1.30 0.18 A_87_P017040 CR385608 1.17 1.04 1.41 1.56 1.29 0.23 A_87_P018943 CO773757 1.45 1.32 1.24 1.17 1.29 0.12 A_87_P012754 CR406475 1.35 1.25 1.28 1.29 1.29 0.04 A_87_P024821 BX278244 1.20 1.44 1.24 1.27 1.29 0.11 A_87_P004692 TC205943 0.92 1.14 1.40 1.68 1.29 0.33 A_87_P009195 S64689 1.51 1.44 1.21 0.98 1.29 0.24 A_87_P021804 BX936097 1.09 1.06 1.42 1.53 1.27 0.24 A_87_P024198 BX930713 1.08 1.17 1.40 1.44 1.27 0.18 A_87_P026326 BU455552 1.26 1.49 1.18 1.13 1.26 0.16 A_87_P029986 BU315486 0.71 1.26 1.44 1.65 1.26 0.40 A_87_P025737 BU470780 1.08 1.36 1.22 1.39 1.26 0.14 A_87_P015563 CR387797 0.50 0.66 1.46 2.40 1.26 0.87 A_87_P008853 X70101 1.44 1.25 1.43 0.90 1.26 0.25 A_87_P013022 CR406058 0.82 1.14 1.26 1.81 1.25 0.41 A_87_P037220 AJ621492 1.24 1.14 1.27 1.37 1.25 0.10 A_87_P004185 TC206921 1.53 1.00 1.37 1.11 1.25 0.24 A_87_P017896 CR353509 1.08 0.97 1.20 1.75 1.25 0.34 A_87_P025131 BX261343 1.57 1.15 1.07 1.19 1.24 0.22 A_87_P023576 BX932252 1.05 0.92 1.02 1.95 1.24 0.48 A_87_P018460 CR352647 1.11 1.19 1.04 1.58 1.23 0.24 A_87_P040155 1.24 1.17 1.05 1.48 1.23 0.18 A_87_P003244 TC216003 1.13 0.96 1.15 1.67 1.23 0.31 A_87_P021497 BX950717 0.66 0.91 1.27 2.06 1.23 0.61 A_87_P007337 TC196203 1.14 1.15 1.05 1.55 1.22 0.22 A_87_P029683 BU327013 0.95 1.09 1.36 1.51 1.22 0.26 A_87_P008280 TC186581 1.23 0.98 1.28 1.40 1.22 0.18 A_87_P027761 BU414008 0.35 1.12 1.43 1.97 1.22 0.68 A_87_P037179 AJ719310 1.52 1.16 1.07 1.11 1.22 0.20 A_87_P012669 CR406603 1.30 1.35 0.89 1.32 1.22 0.22 A_87_P003009 TC218191 1.38 1.16 1.19 1.13 1.22 0.11 A_87_P004170 TC207031 1.37 1.48 1.12 0.88 1.21 0.27 A_87_P000192 TC227280 0.76 1.18 1.31 1.61 1.21 0.35 A_87_P037591 AF479650 0.53 1.41 1.50 1.36 1.20 0.45 A_87_P010927 CR524395 1.22 1.27 1.16 1.15 1.20 0.05 A_87_P012980 CR406132 0.99 0.96 1.16 1.68 1.20 0.33 A_87_P023595 BX932207 1.06 1.00 1.00 1.72 1.19 0.35 A_87_P034517 BU114060 1.10 0.86 1.28 1.53 1.19 0.28 A_87_P021413 BX950848 1.21 1.02 1.31 1.22 1.19 0.12 A_87_P017698 CR353834 1.82 1.19 1.03 0.72 1.19 0.46 A_87_P017912 CR353484 1.59 1.38 1.35 0.44 1.19 0.51
A_87_P012977 CR406136 1.24 1.23 1.25 1.03 1.19 0.10 A_87_P031238 BU267436 1.14 0.98 1.19 1.43 1.18 0.18 A_87_P012514 CR406810 0.96 0.93 1.24 1.60 1.18 0.31 A_87_P004263 TC206756 1.56 1.20 1.18 0.79 1.18 0.31 A_87_P021252 CD734634 2.00 1.16 0.64 0.91 1.18 0.59 A_87_P019578 CO767319 1.01 1.10 1.04 1.55 1.18 0.25 A_87_P031036 BU273236 0.92 1.02 1.15 1.59 1.17 0.30 A_87_P016949 CR385750 0.78 1.13 0.91 1.87 1.17 0.49 A_87_P020338 CO421176 1.24 0.94 1.08 1.42 1.17 0.21 A_87_P007610 TC193806 0.59 0.69 1.01 2.38 1.17 0.83 A_87_P035975 AJ721053 1.07 0.89 0.84 1.85 1.16 0.47 A_87_P035229 AY237249 1.42 1.10 1.01 1.06 1.15 0.19 A_87_P038966 1.25 0.83 1.11 1.41 1.15 0.25 A_87_P015059 CR389053 1.24 1.12 1.11 1.13 1.15 0.06 A_87_P011242 CR523972 1.23 1.08 1.06 1.20 1.15 0.08 A_87_P024411 BX930170 1.57 1.35 0.77 0.89 1.15 0.38 A_87_P017952 CR353415 1.03 1.74 1.25 0.55 1.14 0.49 A_87_P036337 AJ720542 1.23 1.28 0.94 1.11 1.14 0.15 A_87_P003293 TC215575 1.09 0.96 1.02 1.47 1.14 0.23 A_87_P021573 BX950566 0.88 0.80 1.36 1.50 1.14 0.34 A_87_P031121 BU271121 1.14 0.95 1.10 1.34 1.13 0.16 A_87_P015356 CR388595 0.54 0.94 1.03 2.01 1.13 0.62 A_87_P016965 CR385721 1.28 1.19 1.14 0.91 1.13 0.16 A_87_P021836 BX936017 1.37 1.10 1.11 0.91 1.12 0.19 A_87_P018791 CR338859 2.24 0.96 0.59 0.70 1.12 0.76 A_87_P026615 BU449239 0.89 1.00 1.28 1.32 1.12 0.21 A_87_P033130 BU213140 1.18 1.14 1.10 1.03 1.11 0.06 A_87_P027452 BU422643 1.57 1.04 1.02 0.82 1.11 0.32 A_87_P033167 BU211893 1.19 0.85 1.00 1.38 1.11 0.23 A_87_P010530 CV858675 0.70 0.94 1.32 1.46 1.10 0.35 A_87_P038406 1.41 1.27 0.99 0.75 1.10 0.29 A_87_P034684 BU108390 0.74 0.98 0.93 1.77 1.10 0.45 A_87_P023804 BX931737 0.49 1.01 1.13 1.78 1.10 0.53 A_87_P032307 BU232878 1.22 1.05 1.11 1.03 1.10 0.09 A_87_P020597 CN231171 0.75 1.10 1.08 1.47 1.10 0.30 A_87_P030709 BU284383 0.93 0.99 1.09 1.38 1.10 0.20 A_87_P029170 BU355450 0.86 0.93 1.10 1.49 1.10 0.28 A_87_P023211 BX933079 0.71 1.68 1.30 0.69 1.10 0.48 A_87_P036278 AJ720634 1.37 1.13 1.08 0.77 1.09 0.24 A_87_P012317 CR407077 1.10 1.10 0.84 1.30 1.09 0.19 A_87_P015579 CR387777 0.36 0.94 1.10 1.95 1.09 0.66
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