| SRR358795 | callus | wt | 1.12 | MC |
| SRR358796 | callus | wt | 1.33 | MC |
| SRR358797 | callus | wt | 2.23 | MC |
| SRR358798 | callus | wt | 2.36 | MC |
| SRR5560727 | caryopsis | wild_type | 1.13 | MC |
| SRR5560728 | caryopsis | wild_type | 1.04 | MC |
| SRR5560729 | caryopsis | wild_type | 1.86 | MC |
| SRR3015587 | coleoptile | wild_type_plus_1hr_shade | 2.67 | MC |
| SRR3015588 | coleoptile | wild_type_plus_1hr_shade | 3.00 | MC |
| SRR3015589 | coleoptile | wild_type_plus_1hr_white_light | 1.01 | MC |
| SRR4947495 | root | control | 1.78 | MC |
| SRR7265400 | coleoptile | 2dA | 0.70 | MC |
| SRR7265401 | coleoptile | 2dA | 0.78 | MC |
| SRR7265402 | coleoptile | 2dA | 0.41 | MC |
| SRR7265403 | coleoptile | 2dN | 0.74 | MC |
| SRR7265404 | coleoptile | 2dN | 0.68 | MC |
| SRR7265405 | coleoptile | 2dN | 1.02 | MC |
| SRR7265407 | coleoptile | 3dA | 0.43 | MC |
| SRR7265409 | coleoptile | 3dN | 0.66 | MC |
| SRR7265410 | coleoptile | 3dN | 0.38 | MC |
| SRR7265411 | coleoptile | 3dN | 0.44 | MC |
| SRR7265412 | coleoptile | 4dA | 0.68 | MC |
| SRR7265413 | coleoptile | 4dA | 0.94 | MC |
| SRR7265414 | coleoptile | 4dA | 0.53 | MC |
| SRR7265416 | coleoptile | 4dN | 0.62 | MC |
| SRR7265417 | coleoptile | 4dN | 0.45 | MC |
| SRR7265418 | coleoptile | 3dN1dA | 0.63 | MC |
| SRR4104639 | crown | "Zn_deficiency,8_days_of_treatment" | 1.11 | MC |
| SRR4104645 | crown | "Zn_Efficient,8_days_of_treatment" | 1.86 | MC |
| SRR4104637 | crown | "Zn_deficiency,8_days_of_treatment" | 1.34 | MC |
| SRR4104638 | crown | "Zn_deficiency,8_days_of_treatment" | 0.89 | MC |
| SRR4104647 | crown | "Zn_Efficient,8_days_of_treatment" | 2.84 | MC |
| SRR4104641 | crown | "Zn_deficiency,8_days_of_treatment" | 1.92 | MC |
| SRR4104642 | crown | "Zn_deficiency,8_days_of_treatment" | 0.66 | MC |
| SRR4104643 | crown | "Zn_Efficient,8_days_of_treatment" | 1.29 | MC |
| SRR4104644 | crown | "Zn_Efficient,8_days_of_treatment" | 1.40 | MC |
| SRR4104648 | crown | "Zn_Efficient,8_days_of_treatment" | 2.79 | MC |
| SRR4104646 | crown | "Zn_Efficient,8_days_of_treatment" | 0.37 | MC |
| SRR7265373 | embryo | dry seed 0 h | 0.91 | MC |
| SRR7265374 | embryo | dry seed 0 h | 0.84 | MC |
| SRR7265375 | embryo | dry seed 0 h | 0.28 | MC |
| SRR7265376 | embryo | 1hA | 0.79 | MC |
| SRR7265377 | embryo | 1hA | 1.00 | MC |
| SRR7265378 | embryo | 1hA | 1.28 | MC |
| SRR7265379 | embryo | 1hN | 1.01 | MC |
| SRR7265380 | embryo | 1hN | 1.01 | MC |
| SRR7265381 | embryo | 1hN | 1.29 | MC |
| SRR7265382 | embryo | 3hA | 1.37 | MC |
| SRR7265383 | embryo | 3hA | 1.34 | MC |
| SRR7265384 | embryo | 3hA | 1.18 | MC |
| SRR7265385 | embryo | 3hN | 1.12 | MC |
| SRR7265386 | embryo | 3hN | 0.96 | MC |
| SRR7265387 | embryo | 3hN | 1.12 | MC |
| SRR7265388 | embryo | 12hA | 1.26 | MC |
| SRR7265389 | embryo | 12hA | 1.35 | MC |
| SRR7265390 | embryo | 12hA | 1.20 | MC |
| SRR7265391 | embryo | 12hN | 1.04 | MC |
| SRR7265392 | embryo | 12hN | 1.30 | MC |
| SRR7265393 | embryo | 12hN | 1.43 | MC |
| SRR7265394 | embryo | 24hA | 1.16 | MC |
| SRR7265395 | embryo | 24hA | 1.09 | MC |
| SRR7265396 | embryo | 24hA | 0.78 | MC |
| SRR7265397 | embryo | 24hN | 0.96 | MC |
| SRR7265398 | embryo | 24hN | 0.74 | MC |
| SRR7265399 | embryo | 24hN | 0.78 | MC |
| SRR4457246 | flag_leaf | DAH44 | 0.37 | MC |
| SRR1213690 | flower | wt(flower buds) | 1.34 | MC |
| SRR1213691 | flower | wt | 1.68 | MC |
| SRR8060835 | leaf | wild_type | 0.41 | MC |
| SRR8060836 | leaf | wild_type | 0.54 | MC |
| SRR8060837 | leaf | wild_type | 0.32 | MC |
| SRR8240824 | leaf | wild_type | 1.13 | MC |
| SRR8240825 | leaf | wild_type | 0.76 | MC |
| SRR8240826 | leaf | wild_type | 0.39 | MC |
| SRR8240818 | leaf | wild_type | 0.58 | MC |
| SRR8240819 | leaf | wild_type | 0.59 | MC |
| SRR8240820 | leaf | wild_type | 0.72 | MC |
| SRR3015592 | leaf | wild_type_plus_1hr_shade | 3.42 | MC |
| SRR3015594 | leaf | wild_type_plus_1hr_shade | 3.50 | MC |
| SRR3015595 | leaf | wild_type_plus_1hr_white_light | 3.82 | MC |
| SRR3015597 | leaf | wild_type_plus_1hr_white_light | 2.60 | MC |
| SRR2922622 | leaf | Xanthomonas_oryzae_pv._oryzicola_strain_BLS254 | 1.96 | MC |
| SRR2922624 | leaf | Xanthomonas_oryzae_pv._oryzicola_strain_BLS254 | 1.89 | MC |
| SRR1952778 | leaf | 48_hrs_after_inoculation_with_BLS256 | 1.30 | MC |
| SRR1952780 | leaf | 48_hrs_after_inoculation_with_BLS256 | 0.59 | MC |
| SRR1952781 | leaf | 48_hrs_after_inoculation_with_BLS279 | 1.03 | MC |
| SRR1952783 | leaf | 48_hrs_after_inoculation_with_BLS279 | 0.64 | MC |
| SRR1952784 | leaf | 48_hrs_after_inoculation_with_CFBP2286 | 2.31 | MC |
| SRR1952786 | leaf | 48_hrs_after_inoculation_with_CFBP2286 | 0.97 | MC |
| SRR1952787 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.57 | MC |
| SRR1952788 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.51 | MC |
| SRR1952789 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.66 | MC |
| SRR1952790 | leaf | 48_hrs_after_inoculation_with_L8 | 1.24 | MC |
| SRR1952791 | leaf | 48_hrs_after_inoculation_with_L8 | 0.82 | MC |
| SRR1952792 | leaf | 48_hrs_after_inoculation_with_L8 | 0.98 | MC |
| SRR1952793 | leaf | 48_hrs_after_inoculation_with_RS105 | 1.77 | MC |
| SRR1952794 | leaf | 48_hrs_after_inoculation_with_RS105 | 0.46 | MC |
| SRR1952795 | leaf | 48_hrs_after_inoculation_with_RS105 | 1.39 | MC |
| SRR1952796 | leaf | 48_hrs_after_inoculation_with_BXOR1 | 2.79 | MC |
| SRR1952797 | leaf | 48_hrs_after_inoculation_with_BXOR1 | 0.62 | MC |
| SRR1952799 | leaf | 48_hrs_after_inoculation_with_CFBP7331 | 1.71 | MC |
| SRR1952800 | leaf | 48_hrs_after_inoculation_with_CFBP7331 | 0.99 | MC |
| SRR1952801 | leaf | 48_hrs_after_inoculation_with_CFBP7331 | 0.77 | MC |
| SRR1952802 | leaf | 48_hrs_after_inoculation_with_CFBP7341 | 0.81 | MC |
| SRR1952803 | leaf | 48_hrs_after_inoculation_with_CFBP7341 | 1.74 | MC |
| SRR1952804 | leaf | 48_hrs_after_inoculation_with_CFBP7341 | 0.89 | MC |
| SRR1952805 | leaf | 48_hrs_after_inoculation_with_CFBP7342 | 0.88 | MC |
| SRR1952807 | leaf | 48_hrs_after_inoculation_with_CFBP7342 | 0.61 | MC |
| SRR1952808 | leaf | 48_hrs_after_mock_inoculation | 3.03 | MC |
| SRR1952809 | leaf | 48_hrs_after_mock_inoculation | 1.68 | MC |
| SRR1952810 | leaf | 48_hrs_after_mock_inoculation | 3.43 | MC |
| SRR1761788 | leaf | "wild_type,drought,2" | 0.67 | MC |
| SRR1761789 | leaf | "wild_type,drought,2" | 0.44 | MC |
| SRR1761790 | leaf | "wild_type,control,2" | 1.71 | MC |
| SRR1761791 | leaf | "wild_type,control,2" | 1.64 | MC |
| SRR1761780 | leaf | "wild_type,drought,1" | 0.67 | MC |
| SRR1761781 | leaf | "wild_type,drought,1" | 0.44 | MC |
| SRR1761782 | leaf | "wild_type,control,1" | 1.71 | MC |
| SRR1761783 | leaf | "wild_type,control,1" | 1.64 | MC |
| SRR1761528 | leaf | drought | 0.67 | MC |
| SRR1761529 | leaf | drought | 0.44 | MC |
| SRR1761530 | leaf | control | 1.71 | MC |
| SRR1761531 | leaf | control | 1.64 | MC |
| SRR504365 | leaf | wt | 2.40 | MC |
| SRR6417969 | leaf | H2O_control | 1.47 | MC |
| SRR3209769 | leaf | Watered;Long_Day | 0.32 | MC |
| SRR3209777 | leaf | Watered;Long_Day | 0.66 | MC |
| SRR3209780 | leaf | Drought;Short_Day | 0.51 | MC |
| SRR8611900 | leaf | Non-inoculated | 2.59 | MC |
| SRR8611901 | leaf | Non-inoculated | 2.38 | MC |
| SRR8611902 | leaf | Non-inoculated | 2.42 | MC |
| SRR8611909 | leaf | Inoculated with Pyricularia oryzae | 0.73 | MC |
| SRR8611910 | leaf | Inoculated with Pyricularia oryzae | 0.29 | MC |
| SRR8611911 | leaf | Inoculated with Pyricularia oryzae | 0.31 | MC |
| SRR1213693 | leaf | wt | 1.72 | MC |
| SRR6502085 | leaf | 100 mM NaCl | 1.48 | MC |
| SRR6502086 | leaf | 100 mM NaCl | 0.72 | MC |
| SRR6502087 | leaf | 100 mM NaCl | 2.39 | MC |
| SRR6502088 | leaf | control | 2.33 | MC |
| SRR6502089 | leaf | control | 2.69 | MC |
| SRR6502090 | leaf | control | 2.46 | MC |
| SRR6502097 | leaf | 100 mM NaCl | 3.04 | MC |
| SRR6502098 | leaf | 100 mM NaCl | 3.41 | MC |
| SRR6502099 | leaf | 100 mM NaCl | 2.26 | MC |
| SRR6502102 | leaf | control | 3.51 | MC |
| SRR5856927 | leaf | control | 0.24 | MC |
| SRR5856929 | leaf | control | 0.29 | MC |
| SRR5856930 | leaf | salt | 0.29 | MC |
| SRR5856933 | leaf | control | 0.19 | MC |
| SRR6053393 | leaf | ethanol solvent (untreated control) | 2.22 | MC |
| SRR6053394 | leaf | ethanol solvent (untreated control) | 2.42 | MC |
| SRR6053395 | leaf | gibberellic acid (GA) | 1.56 | MC |
| SRR6053396 | leaf | gibberellic acid (GA) | 1.47 | MC |
| SRR6053397 | leaf | gibberellic acid (GA) | 1.19 | MC |
| SRR6053398 | leaf | Paclobutrazol (PB) | 2.00 | MC |
| SRR6053399 | leaf | Paclobutrazol (PB) | 2.53 | MC |
| SRR6053400 | leaf | Paclobutrazol (PB) | 1.77 | MC |
| SRR6168974 | leaf | none (control) | 4.61 | MC |
| SRR6168981 | leaf | none (control) | 0.88 | MC |
| SRR6168982 | leaf | 0.5% Na2CO3 solution for 36h | 0.58 | MC |
| SRR6168983 | leaf | 0.5% Na2CO3 solution for 36h | 1.56 | MC |
| SRR6168984 | leaf | 0.5% Na2CO3 solution for 36h | 1.35 | MC |
| SRR8582888 | panicle | AM | 0.56 | MC |
| SRR8582889 | panicle | AM | 0.81 | MC |
| SRR8582892 | panicle | PM | 7.55 | MC |
| SRR4947496 | root | control | 1.72 | MC |
| SRR5110446 | panicle | Dusk | 0.43 | MC |
| SRR5110451 | panicle | Dawn + 14h | 0.34 | MC |
| SRR5110453 | panicle | Dawn + 17.5h | 0.39 | MC |
| SRR5110458 | panicle | Dawn + 21h | 0.38 | MC |
| SRR1213697 | endosprem | wt(mature seeds) | 0.49 | MC |
| SRR5278374 | pistil | "Balilla,S1" | 0.36 | MC |
| SRR5278376 | pistil | "Balilla,S2" | 0.71 | MC |
| SRR5278377 | pistil | "Balilla,S2" | 1.15 | MC |
| SRR5278378 | pistil | "Balilla,S3" | 3.35 | MC |
| SRR5278379 | pistil | "Balilla,S3" | 2.43 | MC |
| SRR5126147 | root | "mock,1_day" | 0.96 | MC |
| SRR5126148 | root | "mock,1_day" | 0.87 | MC |
| SRR5126149 | root | "mock,1_day" | 1.04 | MC |
| SRR5126150 | root | "auxin(50CM_2,4_D),1_day" | 0.40 | MC |
| SRR5126151 | root | "auxin(50CM_2,4_D),1_day" | 0.53 | MC |
| SRR5126152 | root | "auxin(50CM_2,4_D),1_day" | 0.44 | MC |
| SRR5126153 | root | "mock,7_days" | 1.80 | MC |
| SRR5126155 | root | "mock,7_days" | 1.59 | MC |
| SRR5126157 | root | "mock,7_days" | 1.78 | MC |
| SRR5126159 | root | "auxin(50CM_2,4_D),7_days" | 1.54 | MC |
| SRR5126161 | root | "auxin(50CM_2,4_D),7_days" | 2.16 | MC |
| SRR5126163 | root | "auxin(50CM_2,4_D),7_days" | 2.35 | MC |
| SRR5126165 | root | "mock,14_days" | 0.91 | MC |
| SRR5126167 | root | "mock,14_days" | 1.41 | MC |
| SRR5126169 | root | "mock,14_days" | 1.43 | MC |
| SRR5126171 | root | "auxin(50CM_2,4_D),14_days" | 1.82 | MC |
| SRR5126173 | root | "auxin(50CM_2,4_D),14_days" | 2.12 | MC |
| SRR5126175 | root | "auxin(50CM_2,4_D),14_days" | 2.40 | MC |
| SRR3472897 | root | nontransgenic_rice_plant | 0.41 | MC |
| SRR1213694 | root | wt | 0.58 | MC |
| SRR1213695 | root | wt | 1.70 | MC |
| SRR4947478 | root | control | 0.61 | MC |
| SRR4947479 | root | control | 1.74 | MC |
| SRR4947480 | root | control | 2.11 | MC |
| SRR4947481 | root | control | 2.52 | MC |
| SRR4947482 | root | Al | 0.69 | MC |
| SRR4947483 | root | Al | 0.98 | MC |
| SRR4947484 | root | Al | 1.40 | MC |
| SRR4947485 | root | Al | 3.00 | MC |
| SRR4947487 | root | control | 1.14 | MC |
| SRR4947488 | root | control | 1.68 | MC |
| SRR4947489 | root | control | 1.66 | MC |
| SRR4947490 | root | Al | 1.98 | MC |
| SRR4947491 | root | Al | 1.66 | MC |
| SRR4947492 | root | Al | 2.03 | MC |
| SRR4947493 | root | Al | 2.13 | MC |
| SRR4947494 | root | control | 0.93 | MC |
| SRR4947497 | root | control | 1.91 | MC |
| SRR4947498 | root | Al | 1.48 | MC |
| SRR4947499 | root | Al | 1.68 | MC |
| SRR4947500 | root | Al | 1.76 | MC |
| SRR4947501 | root | Al | 2.55 | MC |
| SRR4947502 | root | control | 1.44 | MC |
| SRR4947503 | root | control | 2.01 | MC |
| SRR4947504 | root | control | 2.12 | MC |
| SRR4947505 | root | control | 2.31 | MC |
| SRR4947506 | root | Al | 0.71 | MC |
| SRR4947507 | root | Al | 1.14 | MC |
| SRR4947508 | root | Al | 0.78 | MC |
| SRR4947509 | root | Al | 2.18 | MC |
| SRR6502091 | root | 100 mM NaCl | 1.17 | MC |
| SRR6502092 | root | 100 mM NaCl | 1.39 | MC |
| SRR6502093 | root | 100 mM NaCl | 1.59 | MC |
| SRR6502094 | root | control | 1.49 | MC |
| SRR6502095 | root | control | 1.68 | MC |
| SRR6502096 | root | control | 1.18 | MC |
| SRR6502103 | root | 100 mM NaCl | 1.21 | MC |
| SRR6502104 | root | 100 mM NaCl | 1.48 | MC |
| SRR6502105 | root | 100 mM NaCl | 1.04 | MC |
| SRR6502106 | root | control | 1.75 | MC |
| SRR6502107 | root | control | 1.23 | MC |
| SRR6502108 | root | control | 1.70 | MC |
| SRR1740432 | root_elongation_zone | wt | 0.30 | MC |
| SRR1740433 | root_elongation_zone | wt | 0.40 | MC |
| SRR1740428 | root_meristematic_zone | wt | 0.65 | MC |
| SRR1740429 | root_meristematic_zone | wt | 0.58 | MC |
| SRR1740430 | root_meristematic_zone | wt | 0.93 | MC |
| SRR6441554 | seedling | wild_type | 2.00 | MC |
| SRR6441555 | seedling | wild_type | 2.25 | MC |
| SRR2154086 | seedling | wt | 4.17 | MC |
| SRR2154082 | seedling | wt | 0.71 | MC |
| SRR2154083 | seedling | wt | 0.40 | MC |
| SRR2154084 | seedling | wt | 0.73 | MC |
| SRR2154085 | seedling | wt | 3.30 | MC |
| SRR2154087 | seedling | wt | 2.41 | MC |
| SRR3098741 | seedling | wt | 2.14 | MC |
| SRR2857719 | seedling | drought_stress_0h | 1.49 | MC |
| SRR2857720 | seedling | drought_stress_1h | 1.45 | MC |
| SRR2857721 | seedling | drought_stress_6h | 0.63 | MC |
| SRR1944582 | seedling | "with_chilling_teatment_(4C,33h)" | 0.37 | MC |
| SRR1944583 | seedling | no_treatment | 3.21 | MC |
| SRR358791 | seedling | wt | 1.19 | MC |
| SRR358792 | seedling | wt | 2.74 | MC |
| SRR358793 | seedling | wt | 1.24 | MC |
| SRR358794 | seedling | wt | 2.18 | MC |
| SRR1288364 | shoot | "none,3_days_post_infection" | 2.71 | MC |
| SRR1288365 | shoot | "none,7_days_post_infection" | 4.72 | MC |
| SRR1288370 | shoot | "roots_rot_nematode_(H._oryzae),7_days_post_infection" | 6.54 | MC |
| SRR4841741 | shoot | shoots_of_Meloidogyne_graminicola_infected_3_dai | 2.25 | MC |
| SRR3950244 | shoot | Drought_during_3_days;Fr13_inoculated | 0.53 | MC |
| SRR3950245 | shoot | Drought_during_3_days;Fr13_inoculated | 0.95 | MC |
| SRR3950246 | shoot | Drought_during_3_days;Fr13_inoculated | 1.04 | MC |
| SRR3950247 | shoot | No_DIS;Fr13_inoculated | 0.88 | MC |
| SRR3950248 | shoot | No_DIS;Fr13_inoculated | 1.13 | MC |
| SRR3950249 | shoot | No_DIS;Fr13_inoculated | 1.24 | MC |
| SRR3950250 | shoot | Drought_during_3_days;_mock_inoculated | 2.08 | MC |
| SRR3950251 | shoot | Drought_during_3_days;_mock_inoculated | 3.64 | MC |
| SRR3950252 | shoot | Drought_during_3_days;_mock_inoculated | 2.73 | MC |
| SRR3950253 | shoot | No_DIS;_mock_inoculated | 1.58 | MC |
| SRR3950254 | shoot | No_DIS;_mock_inoculated | 3.02 | MC |
| SRR3950255 | shoot | No_DIS;_mock_inoculated | 3.40 | MC |
| SRR5796940 | shoot | "Control,22C for 10 min" | 2.10 | MC |
| SRR5796941 | shoot | "Control,22C for 10 min" | 2.33 | MC |
| SRR5796942 | shoot | "Control,22C for 10 min, then 30C for 10 min" | 2.40 | MC |
| SRR5796943 | shoot | "Control,22C for 10 min, then 30C for 10 min" | 2.98 | MC |
| SRR5796944 | shoot | "Control, 22C for 10 min, then 30C for 50 min" | 2.98 | MC |
| SRR5796945 | shoot | "Control, 22C for 10 min, then 30C for 50 min" | 2.56 | MC |
| SRR5796947 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 3.25 | MC |
| SRR5796948 | shoot | "Control,22C for 10 min, then 30C for 9h50 min" | 3.03 | MC |
| SRR5796949 | shoot | "Control,22C for 10 min, then 30C for 9h50 min" | 3.73 | MC |
| SRR5052721 | shoot_apical_meristem | 12_days_after_shift | 7.69 | MC |
| SRR5052735 | shoot_apical_meristem | 12_days_after_shift | 13.58 | MC |
| SRR1617549 | shoot_apical_meristem | no collect | 1.20 | MC |
| SRR1617550 | shoot_apical_meristem | no collect | 1.02 | MC |
| SRR1617553 | shoot_apical_meristem | no collect | 2.16 | MC |
| SRR1617554 | shoot_apical_meristem | no collect | 2.28 | MC |
| SRR1617556 | shoot_apical_meristem | no collect | 1.33 | MC |
| SRR1617557 | shoot_apical_meristem | no collect | 2.02 | MC |
| SRR1617558 | shoot_apical_meristem | no collect | 1.05 | MC |
| SRR3129124 | spikelet | Wild_type_9522_S5 | 4.39 | MC |
| SRR3129125 | spikelet | Wild_type_9522_S5 | 3.09 | MC |
| SRR3129127 | spikelet | Wild_type_9522_S7 | 3.04 | MC |
| SRR3129128 | spikelet | Wild_type_9522_S7 | 3.42 | MC |
| SRR3129129 | spikelet | Wild_type_9522_S7 | 2.80 | MC |
| SRR7760293 | spikelet | control condition (29C) for 7 hrs | 0.38 | MC |
| SRR7760300 | spikelet | high temperature treatment (38C) for 7 hrs | 0.24 | MC |
| SRR7760301 | spikelet | high temperature treatment (38C) for 7 hrs | 0.23 | MC |
| SRR7760302 | spikelet | high temperature treatment (38C) for 7 hrs | 0.25 | MC |