| SRR358795 | callus | wt | 1.96 | MC |
| SRR358796 | callus | wt | 1.59 | MC |
| SRR358797 | callus | wt | 0.88 | MC |
| SRR358798 | callus | wt | 1.54 | MC |
| SRR5560727 | caryopsis | wild_type | 0.45 | MC |
| SRR3015587 | coleoptile | wild_type_plus_1hr_shade | 0.85 | MC |
| SRR3015588 | coleoptile | wild_type_plus_1hr_shade | 0.47 | MC |
| SRR3015589 | coleoptile | wild_type_plus_1hr_white_light | 0.62 | MC |
| SRR4947495 | root | control | 3.67 | MC |
| SRR7265400 | coleoptile | 2dA | 1.31 | MC |
| SRR7265401 | coleoptile | 2dA | 1.58 | MC |
| SRR7265402 | coleoptile | 2dA | 1.81 | MC |
| SRR7265403 | coleoptile | 2dN | 0.37 | MC |
| SRR7265404 | coleoptile | 2dN | 0.30 | MC |
| SRR7265405 | coleoptile | 2dN | 0.66 | MC |
| SRR7265406 | coleoptile | 3dA | 0.50 | MC |
| SRR7265407 | coleoptile | 3dA | 0.57 | MC |
| SRR7265408 | coleoptile | 3dA | 0.59 | MC |
| SRR7265413 | coleoptile | 4dA | 0.60 | MC |
| SRR7265414 | coleoptile | 4dA | 0.90 | MC |
| SRR7265419 | coleoptile | 3dN1dA | 0.48 | MC |
| SRR4104639 | crown | "Zn_deficiency,8_days_of_treatment" | 2.13 | MC |
| SRR4104645 | crown | "Zn_Efficient,8_days_of_treatment" | 0.76 | MC |
| SRR4104637 | crown | "Zn_deficiency,8_days_of_treatment" | 2.71 | MC |
| SRR4104638 | crown | "Zn_deficiency,8_days_of_treatment" | 2.25 | MC |
| SRR4104640 | crown | "Zn_deficiency,8_days_of_treatment" | 2.11 | MC |
| SRR4104641 | crown | "Zn_deficiency,8_days_of_treatment" | 2.14 | MC |
| SRR4104642 | crown | "Zn_deficiency,8_days_of_treatment" | 2.51 | MC |
| SRR4104643 | crown | "Zn_Efficient,8_days_of_treatment" | 3.65 | MC |
| SRR4104644 | crown | "Zn_Efficient,8_days_of_treatment" | 0.54 | MC |
| SRR4104646 | crown | "Zn_Efficient,8_days_of_treatment" | 3.79 | MC |
| SRR7265373 | embryo | dry seed 0 h | 0.58 | MC |
| SRR7265374 | embryo | dry seed 0 h | 0.46 | MC |
| SRR7265375 | embryo | dry seed 0 h | 0.23 | MC |
| SRR7265378 | embryo | 1hA | 0.28 | MC |
| SRR7265379 | embryo | 1hN | 0.37 | MC |
| SRR7265389 | embryo | 12hA | 0.91 | MC |
| SRR7265390 | embryo | 12hA | 0.73 | MC |
| SRR7265394 | embryo | 24hA | 0.68 | MC |
| SRR7265395 | embryo | 24hA | 0.89 | MC |
| SRR7265396 | embryo | 24hA | 0.79 | MC |
| SRR7265399 | embryo | 24hN | 0.41 | MC |
| SRR1213690 | flower | wt(flower buds) | 0.83 | MC |
| SRR1213691 | flower | wt | 0.42 | MC |
| SRR8060835 | leaf | wild_type | 0.33 | MC |
| SRR8060836 | leaf | wild_type | 0.60 | MC |
| SRR8060837 | leaf | wild_type | 0.95 | MC |
| SRR8240825 | leaf | wild_type | 0.35 | MC |
| SRR8240820 | leaf | wild_type | 0.31 | MC |
| SRR3015592 | leaf | wild_type_plus_1hr_shade | 0.92 | MC |
| SRR2922624 | leaf | Xanthomonas_oryzae_pv._oryzicola_strain_BLS254 | 0.73 | MC |
| SRR1952778 | leaf | 48_hrs_after_inoculation_with_BLS256 | 0.44 | MC |
| SRR1952780 | leaf | 48_hrs_after_inoculation_with_BLS256 | 0.72 | MC |
| SRR1952781 | leaf | 48_hrs_after_inoculation_with_BLS279 | 0.41 | MC |
| SRR1952787 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.41 | MC |
| SRR1952789 | leaf | 48_hrs_after_inoculation_with_B8_12 | 0.22 | MC |
| SRR1952790 | leaf | 48_hrs_after_inoculation_with_L8 | 0.45 | MC |
| SRR1952793 | leaf | 48_hrs_after_inoculation_with_RS105 | 0.34 | MC |
| SRR1952795 | leaf | 48_hrs_after_inoculation_with_RS105 | 0.41 | MC |
| SRR1952797 | leaf | 48_hrs_after_inoculation_with_BXOR1 | 0.40 | MC |
| SRR1952799 | leaf | 48_hrs_after_inoculation_with_CFBP7331 | 0.83 | MC |
| SRR1952801 | leaf | 48_hrs_after_inoculation_with_CFBP7331 | 0.28 | MC |
| SRR1952802 | leaf | 48_hrs_after_inoculation_with_CFBP7341 | 0.32 | MC |
| SRR1952804 | leaf | 48_hrs_after_inoculation_with_CFBP7341 | 0.51 | MC |
| SRR1952805 | leaf | 48_hrs_after_inoculation_with_CFBP7342 | 0.31 | MC |
| SRR1952807 | leaf | 48_hrs_after_inoculation_with_CFBP7342 | 0.58 | MC |
| SRR504365 | leaf | wt | 0.20 | MC |
| SRR3209769 | leaf | Watered;Long_Day | 0.24 | MC |
| SRR8611900 | leaf | Non-inoculated | 1.09 | MC |
| SRR8611901 | leaf | Non-inoculated | 1.96 | MC |
| SRR8611902 | leaf | Non-inoculated | 0.44 | MC |
| SRR8611909 | leaf | Inoculated with Pyricularia oryzae | 1.21 | MC |
| SRR6216698 | leaf | nontransgenic rice plant | 0.26 | MC |
| SRR6216699 | leaf | nontransgenic rice plant | 0.54 | MC |
| SRR1213692 | leaf | wt | 0.51 | MC |
| SRR1213693 | leaf | wt | 0.52 | MC |
| SRR6502085 | leaf | 100 mM NaCl | 0.78 | MC |
| SRR6502086 | leaf | 100 mM NaCl | 1.04 | MC |
| SRR6502087 | leaf | 100 mM NaCl | 0.75 | MC |
| SRR6502088 | leaf | control | 0.47 | MC |
| SRR6502090 | leaf | control | 0.51 | MC |
| SRR6502097 | leaf | 100 mM NaCl | 0.82 | MC |
| SRR6502098 | leaf | 100 mM NaCl | 1.16 | MC |
| SRR6502099 | leaf | 100 mM NaCl | 1.03 | MC |
| SRR6502100 | leaf | control | 0.53 | MC |
| SRR6502101 | leaf | control | 0.49 | MC |
| SRR6502102 | leaf | control | 0.52 | MC |
| SRR5856927 | leaf | control | 1.45 | MC |
| SRR5856929 | leaf | control | 1.44 | MC |
| SRR5856930 | leaf | salt | 1.28 | MC |
| SRR5856931 | leaf | salt | 1.12 | MC |
| SRR5856932 | leaf | salt | 1.12 | MC |
| SRR5856937 | leaf | salt | 1.49 | MC |
| SRR6053400 | leaf | Paclobutrazol (PB) | 2.34 | MC |
| SRR6168974 | leaf | none (control) | 0.48 | MC |
| SRR6168975 | leaf | none (control) | 1.54 | MC |
| SRR6168976 | leaf | 0.5% Na2CO3 solution for 36h | 1.39 | MC |
| SRR6168977 | leaf | 0.5% Na2CO3 solution for 36h | 0.95 | MC |
| SRR6168978 | leaf | 0.5% Na2CO3 solution for 36h | 2.36 | MC |
| SRR6168979 | leaf | none (control) | 0.60 | MC |
| SRR6168980 | leaf | none (control) | 0.17 | MC |
| SRR6168981 | leaf | none (control) | 0.21 | MC |
| SRR6168982 | leaf | 0.5% Na2CO3 solution for 36h | 0.40 | MC |
| SRR6168984 | leaf | 0.5% Na2CO3 solution for 36h | 0.46 | MC |
| SRR8582891 | panicle | PM | 0.58 | MC |
| SRR4947496 | root | control | 2.90 | MC |
| SRR5110437 | panicle | Dawn + 7h | 1.04 | MC |
| SRR5110438 | panicle | Dawn + 7h | 1.01 | MC |
| SRR5110440 | panicle | Dawn + 7h | 0.76 | MC |
| SRR5110441 | panicle | Dawn + 10.5h | 1.61 | MC |
| SRR5110442 | panicle | Dawn + 10.5h | 1.03 | MC |
| SRR5110444 | panicle | Dawn + 10.5h | 0.61 | MC |
| SRR5110445 | panicle | Dusk | 1.19 | MC |
| SRR5110447 | panicle | Dusk | 0.95 | MC |
| SRR5110448 | panicle | Dusk | 0.76 | MC |
| SRR5110451 | panicle | Dawn + 14h | 0.30 | MC |
| SRR5110453 | panicle | Dawn + 17.5h | 0.40 | MC |
| SRR5110457 | panicle | Dawn + 21h | 0.70 | MC |
| SRR1633182 | panicle | WT | 0.86 | MC |
| SRR1633185 | panicle | WT | 0.47 | MC |
| SRR5278375 | pistil | "Balilla,S1" | 0.30 | MC |
| SRR5278378 | pistil | "Balilla,S3" | 0.50 | MC |
| SRR5278379 | pistil | "Balilla,S3" | 0.97 | MC |
| SRR5126147 | root | "mock,1_day" | 1.23 | MC |
| SRR5126148 | root | "mock,1_day" | 1.29 | MC |
| SRR5126149 | root | "mock,1_day" | 2.27 | MC |
| SRR5126150 | root | "auxin(50CM_2,4_D),1_day" | 0.41 | MC |
| SRR5126151 | root | "auxin(50CM_2,4_D),1_day" | 2.67 | MC |
| SRR5126152 | root | "auxin(50CM_2,4_D),1_day" | 4.19 | MC |
| SRR5126153 | root | "mock,7_days" | 1.21 | MC |
| SRR5126155 | root | "mock,7_days" | 0.48 | MC |
| SRR5126157 | root | "mock,7_days" | 3.71 | MC |
| SRR5126159 | root | "auxin(50CM_2,4_D),7_days" | 0.72 | MC |
| SRR5126163 | root | "auxin(50CM_2,4_D),7_days" | 1.91 | MC |
| SRR5126165 | root | "mock,14_days" | 1.10 | MC |
| SRR5126167 | root | "mock,14_days" | 0.49 | MC |
| SRR5126169 | root | "mock,14_days" | 2.09 | MC |
| SRR5126171 | root | "auxin(50CM_2,4_D),14_days" | 0.60 | MC |
| SRR5126173 | root | "auxin(50CM_2,4_D),14_days" | 0.93 | MC |
| SRR5126175 | root | "auxin(50CM_2,4_D),14_days" | 0.42 | MC |
| SRR3472897 | root | nontransgenic_rice_plant | 1.32 | MC |
| SRR3472900 | root | nontransgenic_rice_plant | 1.16 | MC |
| SRR1213694 | root | wt | 0.60 | MC |
| SRR1213695 | root | wt | 1.36 | MC |
| SRR4947479 | root | control | 2.47 | MC |
| SRR4947480 | root | control | 2.96 | MC |
| SRR4947481 | root | control | 1.72 | MC |
| SRR4947484 | root | Al | 4.41 | MC |
| SRR4947485 | root | Al | 4.69 | MC |
| SRR4947487 | root | control | 2.83 | MC |
| SRR4947488 | root | control | 4.05 | MC |
| SRR4947489 | root | control | 2.73 | MC |
| SRR4947492 | root | Al | 3.45 | MC |
| SRR4947493 | root | Al | 2.27 | MC |
| SRR4947494 | root | control | 4.16 | MC |
| SRR4947497 | root | control | 5.41 | MC |
| SRR4947498 | root | Al | 5.70 | MC |
| SRR4947500 | root | Al | 3.32 | MC |
| SRR4947501 | root | Al | 5.52 | MC |
| SRR4947504 | root | control | 2.44 | MC |
| SRR4947505 | root | control | 2.43 | MC |
| SRR4947507 | root | Al | 3.86 | MC |
| SRR4947508 | root | Al | 1.82 | MC |
| SRR4947509 | root | Al | 2.40 | MC |
| SRR6502091 | root | 100 mM NaCl | 4.29 | MC |
| SRR6502092 | root | 100 mM NaCl | 3.49 | MC |
| SRR6502093 | root | 100 mM NaCl | 2.78 | MC |
| SRR6502094 | root | control | 4.85 | MC |
| SRR6502095 | root | control | 2.40 | MC |
| SRR6502096 | root | control | 4.13 | MC |
| SRR6502103 | root | 100 mM NaCl | 4.32 | MC |
| SRR6502104 | root | 100 mM NaCl | 2.73 | MC |
| SRR6502106 | root | control | 3.25 | MC |
| SRR6502107 | root | control | 3.22 | MC |
| SRR6502108 | root | control | 2.74 | MC |
| SRR1740432 | root_elongation_zone | wt | 2.91 | MC |
| SRR1740429 | root_meristematic_zone | wt | 1.89 | MC |
| SRR6441554 | seedling | wild_type | 0.56 | MC |
| SRR2154086 | seedling | wt | 3.50 | MC |
| SRR2154082 | seedling | wt | 2.23 | MC |
| SRR2154083 | seedling | wt | 1.12 | MC |
| SRR2154084 | seedling | wt | 3.50 | MC |
| SRR2154085 | seedling | wt | 1.56 | MC |
| SRR2154087 | seedling | wt | 0.84 | MC |
| SRR3098741 | seedling | wt | 0.18 | MC |
| SRR3098742 | seedling | wt | 0.29 | MC |
| SRR3098743 | seedling | wt | 0.29 | MC |
| SRR358791 | seedling | wt | 2.30 | MC |
| SRR358792 | seedling | wt | 2.33 | MC |
| SRR358793 | seedling | wt | 2.73 | MC |
| SRR358794 | seedling | wt | 3.65 | MC |
| SRR1288363 | shoot | "none,3_days_post_infection" | 2.01 | MC |
| SRR1288365 | shoot | "none,7_days_post_infection" | 4.16 | MC |
| SRR1288366 | shoot | "none,7_days_post_infection" | 5.68 | MC |
| SRR1288368 | shoot | "roots_rot_nematode_(H._oryzae),3_days_post_infection" | 9.59 | MC |
| SRR1288370 | shoot | "roots_rot_nematode_(H._oryzae),7_days_post_infection" | 6.35 | MC |
| SRR4841742 | shoot | shoots_of_Meloidogyne_graminicola_infected_7_dai | 4.61 | MC |
| SRR4841743 | shoot | shoots_of_Meloidogyne_graminicola_infected_7_dai | 6.88 | MC |
| SRR3950245 | shoot | Drought_during_3_days;Fr13_inoculated | 0.32 | MC |
| SRR3950246 | shoot | Drought_during_3_days;Fr13_inoculated | 0.25 | MC |
| SRR3950248 | shoot | No_DIS;Fr13_inoculated | 0.30 | MC |
| SRR3950249 | shoot | No_DIS;Fr13_inoculated | 0.49 | MC |
| SRR3950250 | shoot | Drought_during_3_days;_mock_inoculated | 0.77 | MC |
| SRR3950251 | shoot | Drought_during_3_days;_mock_inoculated | 1.07 | MC |
| SRR3950252 | shoot | Drought_during_3_days;_mock_inoculated | 1.35 | MC |
| SRR3950253 | shoot | No_DIS;_mock_inoculated | 0.51 | MC |
| SRR3950254 | shoot | No_DIS;_mock_inoculated | 0.77 | MC |
| SRR3950255 | shoot | No_DIS;_mock_inoculated | 1.25 | MC |
| SRR5796940 | shoot | "Control,22C for 10 min" | 0.81 | MC |
| SRR5796941 | shoot | "Control,22C for 10 min" | 1.07 | MC |
| SRR5796942 | shoot | "Control,22C for 10 min, then 30C for 10 min" | 0.85 | MC |
| SRR5796943 | shoot | "Control,22C for 10 min, then 30C for 10 min" | 1.10 | MC |
| SRR5796944 | shoot | "Control, 22C for 10 min, then 30C for 50 min" | 1.18 | MC |
| SRR5796945 | shoot | "Control, 22C for 10 min, then 30C for 50 min" | 1.23 | MC |
| SRR5796946 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 1.96 | MC |
| SRR5796947 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 0.89 | MC |
| SRR5796948 | shoot | "Control,22C for 10 min, then 30C for 9h50 min" | 0.70 | MC |
| SRR5796949 | shoot | "Control,22C for 10 min, then 30C for 9h50 min" | 0.65 | MC |
| SRR5796950 | shoot | "Heat,42C for 10 min" | 0.61 | MC |
| SRR5796951 | shoot | "Heat,42C for 10 min" | 0.79 | MC |
| SRR5796952 | shoot | "Heat,42C for 10 min, then 30C for 10 min" | 0.99 | MC |
| SRR5796953 | shoot | "Heat,42C for 10 min, then 30C for 10 min" | 0.78 | MC |
| SRR5796954 | shoot | "Heat, 42C for 10 min, then 30C for 50 min" | 0.40 | MC |
| SRR5796956 | shoot | "Heat,42C for 10 min, then 30C for 1h50 min" | 0.82 | MC |
| SRR5796957 | shoot | "Heat,42C for 10 min, then 30C for 1h50 min" | 0.41 | MC |
| SRR5796958 | shoot | "Heat,42C for 10 min, then 30C for 9h50 min" | 0.57 | MC |
| SRR5052708 | shoot_apical_meristem | 0_days_after_shift | 5.12 | MC |
| SRR5052709 | shoot_apical_meristem | 0_days_after_shift | 5.28 | MC |
| SRR5052710 | shoot_apical_meristem | 0_days_after_shift | 5.47 | MC |
| SRR5052713 | shoot_apical_meristem | 4_days_after_shift | 1.82 | MC |
| SRR5052714 | shoot_apical_meristem | 4_days_after_shift | 5.87 | MC |
| SRR5052719 | shoot_apical_meristem | 8_days_after_shift | 5.83 | MC |
| SRR5052721 | shoot_apical_meristem | 12_days_after_shift | 4.61 | MC |
| SRR5052722 | shoot_apical_meristem | 12_days_after_shift | 6.96 | MC |
| SRR5052723 | shoot_apical_meristem | 12_days_after_shift | 7.15 | MC |
| SRR5052725 | shoot_apical_meristem | 0_days_after_shift | 1.64 | MC |
| SRR5052726 | shoot_apical_meristem | 0_days_after_shift | 4.82 | MC |
| SRR5052730 | shoot_apical_meristem | 4_days_after_shift | 7.22 | MC |
| SRR5052735 | shoot_apical_meristem | 12_days_after_shift | 10.40 | MC |
| SRR1617549 | shoot_apical_meristem | no collect | 2.69 | MC |
| SRR1617550 | shoot_apical_meristem | no collect | 1.51 | MC |
| SRR1617553 | shoot_apical_meristem | no collect | 7.74 | MC |
| SRR1617554 | shoot_apical_meristem | no collect | 1.13 | MC |
| SRR1617556 | shoot_apical_meristem | no collect | 6.03 | MC |
| SRR3129121 | spikelet | Wild_type_9522_S3 | 0.31 | MC |
| SRR3129122 | spikelet | Wild_type_9522_S3 | 0.56 | MC |
| SRR3129124 | spikelet | Wild_type_9522_S5 | 0.73 | MC |
| SRR3129125 | spikelet | Wild_type_9522_S5 | 1.72 | MC |
| SRR3129126 | spikelet | Wild_type_9522_S5 | 0.46 | MC |
| SRR3129127 | spikelet | Wild_type_9522_S7 | 0.69 | MC |
| SRR3129128 | spikelet | Wild_type_9522_S7 | 0.84 | MC |
| SRR3129129 | spikelet | Wild_type_9522_S7 | 1.26 | MC |
| SRR7760291 | spikelet | control condition (29C) for 7 hrs | 0.50 | MC |
| SRR7760292 | spikelet | control condition (29C) for 7 hrs | 1.11 | MC |
| SRR7760293 | spikelet | control condition (29C) for 7 hrs | 0.88 | MC |
| SRR7760296 | spikelet | high temperature treatment (38C) for 7 hrs | 0.69 | MC |
| SRR7760297 | spikelet | control condition (29C) for 7 hrs | 1.25 | MC |
| SRR7760298 | spikelet | control condition (29C) for 7 hrs | 1.47 | MC |
| SRR7760299 | spikelet | control condition (29C) for 7 hrs | 1.24 | MC |
| SRR7760301 | spikelet | high temperature treatment (38C) for 7 hrs | 0.32 | MC |
| SRR7760302 | spikelet | high temperature treatment (38C) for 7 hrs | 0.25 | MC |