| SRR358796 | callus | wt | 1.80 | MC |
| SRR358797 | callus | wt | 1.05 | MC |
| SRR358798 | callus | wt | 1.14 | MC |
| SRR5560728 | caryopsis | wild_type | 0.40 | MC |
| SRR5560729 | caryopsis | wild_type | 0.41 | MC |
| SRR3015587 | coleoptile | wild_type_plus_1hr_shade | 1.36 | MC |
| SRR3015588 | coleoptile | wild_type_plus_1hr_shade | 1.03 | MC |
| SRR4947495 | root | control | 1.54 | MC |
| SRR3015591 | coleoptile | wild_type_plus_1hr_white_light | 0.87 | MC |
| SRR7265400 | coleoptile | 2dA | 0.90 | MC |
| SRR7265401 | coleoptile | 2dA | 0.69 | MC |
| SRR7265402 | coleoptile | 2dA | 1.14 | MC |
| SRR7265403 | coleoptile | 2dN | 1.38 | MC |
| SRR7265404 | coleoptile | 2dN | 1.70 | MC |
| SRR7265405 | coleoptile | 2dN | 1.79 | MC |
| SRR7265406 | coleoptile | 3dA | 0.77 | MC |
| SRR7265407 | coleoptile | 3dA | 0.90 | MC |
| SRR7265408 | coleoptile | 3dA | 0.76 | MC |
| SRR7265409 | coleoptile | 3dN | 1.33 | MC |
| SRR7265410 | coleoptile | 3dN | 2.23 | MC |
| SRR7265411 | coleoptile | 3dN | 1.78 | MC |
| SRR7265413 | coleoptile | 4dA | 0.51 | MC |
| SRR7265414 | coleoptile | 4dA | 0.52 | MC |
| SRR7265415 | coleoptile | 4dN | 2.34 | MC |
| SRR7265416 | coleoptile | 4dN | 2.59 | MC |
| SRR7265417 | coleoptile | 4dN | 2.13 | MC |
| SRR7265418 | coleoptile | 3dN1dA | 0.71 | MC |
| SRR7265419 | coleoptile | 3dN1dA | 0.82 | MC |
| SRR7265420 | coleoptile | 3dN1dA | 0.95 | MC |
| SRR4104639 | crown | "Zn_deficiency,8_days_of_treatment" | 1.07 | MC |
| SRR4104645 | crown | "Zn_Efficient,8_days_of_treatment" | 3.17 | MC |
| SRR4104637 | crown | "Zn_deficiency,8_days_of_treatment" | 0.90 | MC |
| SRR4104638 | crown | "Zn_deficiency,8_days_of_treatment" | 1.27 | MC |
| SRR4104647 | crown | "Zn_Efficient,8_days_of_treatment" | 2.34 | MC |
| SRR4104640 | crown | "Zn_deficiency,8_days_of_treatment" | 0.94 | MC |
| SRR4104641 | crown | "Zn_deficiency,8_days_of_treatment" | 1.36 | MC |
| SRR4104642 | crown | "Zn_deficiency,8_days_of_treatment" | 0.42 | MC |
| SRR4104643 | crown | "Zn_Efficient,8_days_of_treatment" | 2.64 | MC |
| SRR4104644 | crown | "Zn_Efficient,8_days_of_treatment" | 2.56 | MC |
| SRR4104648 | crown | "Zn_Efficient,8_days_of_treatment" | 2.55 | MC |
| SRR4104646 | crown | "Zn_Efficient,8_days_of_treatment" | 2.34 | MC |
| SRR7265376 | embryo | 1hA | 0.53 | MC |
| SRR7265377 | embryo | 1hA | 0.72 | MC |
| SRR7265378 | embryo | 1hA | 0.43 | MC |
| SRR7265379 | embryo | 1hN | 0.40 | MC |
| SRR7265380 | embryo | 1hN | 0.70 | MC |
| SRR7265381 | embryo | 1hN | 0.58 | MC |
| SRR7265382 | embryo | 3hA | 2.01 | MC |
| SRR7265383 | embryo | 3hA | 1.38 | MC |
| SRR7265384 | embryo | 3hA | 1.83 | MC |
| SRR7265385 | embryo | 3hN | 1.28 | MC |
| SRR7265386 | embryo | 3hN | 1.05 | MC |
| SRR7265387 | embryo | 3hN | 1.03 | MC |
| SRR7265388 | embryo | 12hA | 1.62 | MC |
| SRR7265389 | embryo | 12hA | 2.49 | MC |
| SRR7265390 | embryo | 12hA | 2.41 | MC |
| SRR7265391 | embryo | 12hN | 4.95 | MC |
| SRR7265392 | embryo | 12hN | 3.85 | MC |
| SRR7265394 | embryo | 24hA | 1.25 | MC |
| SRR7265395 | embryo | 24hA | 1.55 | MC |
| SRR7265396 | embryo | 24hA | 1.57 | MC |
| SRR7265397 | embryo | 24hN | 2.15 | MC |
| SRR7265398 | embryo | 24hN | 2.19 | MC |
| SRR7265399 | embryo | 24hN | 2.40 | MC |
| SRR1213690 | flower | wt(flower buds) | 0.41 | MC |
| SRR1213691 | flower | wt | 0.45 | MC |
| SRR3015592 | leaf | wild_type_plus_1hr_shade | 1.39 | MC |
| SRR3015594 | leaf | wild_type_plus_1hr_shade | 0.97 | MC |
| SRR3015595 | leaf | wild_type_plus_1hr_white_light | 0.45 | MC |
| SRR3015597 | leaf | wild_type_plus_1hr_white_light | 1.49 | MC |
| SRR8611900 | leaf | Non-inoculated | 0.23 | MC |
| SRR8611901 | leaf | Non-inoculated | 0.40 | MC |
| SRR6216698 | leaf | nontransgenic rice plant | 0.86 | MC |
| SRR6216699 | leaf | nontransgenic rice plant | 1.01 | MC |
| SRR5856929 | leaf | control | 1.34 | MC |
| SRR5856930 | leaf | salt | 1.37 | MC |
| SRR5856931 | leaf | salt | 1.38 | MC |
| SRR5856932 | leaf | salt | 1.52 | MC |
| SRR5856933 | leaf | control | 2.26 | MC |
| SRR5856937 | leaf | salt | 1.68 | MC |
| SRR6053397 | leaf | gibberellic acid (GA) | 0.92 | MC |
| SRR6168973 | leaf | none (control) | 1.98 | MC |
| SRR6168974 | leaf | none (control) | 1.87 | MC |
| SRR6168975 | leaf | none (control) | 0.57 | MC |
| SRR6168976 | leaf | 0.5% Na2CO3 solution for 36h | 5.30 | MC |
| SRR6168978 | leaf | 0.5% Na2CO3 solution for 36h | 3.10 | MC |
| SRR6168980 | leaf | none (control) | 0.20 | MC |
| SRR6168981 | leaf | none (control) | 0.41 | MC |
| SRR6168982 | leaf | 0.5% Na2CO3 solution for 36h | 0.67 | MC |
| SRR6168983 | leaf | 0.5% Na2CO3 solution for 36h | 0.69 | MC |
| SRR6168984 | leaf | 0.5% Na2CO3 solution for 36h | 0.54 | MC |
| SRR5110431 | panicle | Dawn | 0.38 | MC |
| SRR4947496 | root | control | 1.84 | MC |
| SRR5110434 | panicle | Dawn + 3.5h | 0.76 | MC |
| SRR5110435 | panicle | Dawn + 3.5h | 0.37 | MC |
| SRR5110440 | panicle | Dawn + 7h | 0.67 | MC |
| SRR5110446 | panicle | Dusk | 0.33 | MC |
| SRR5110447 | panicle | Dusk | 0.50 | MC |
| SRR5110451 | panicle | Dawn + 14h | 0.42 | MC |
| SRR5110453 | panicle | Dawn + 17.5h | 0.31 | MC |
| SRR5110454 | panicle | Dawn + 17.5h | 0.38 | MC |
| SRR5110458 | panicle | Dawn + 21h | 0.53 | MC |
| SRR1633182 | panicle | WT | 2.52 | MC |
| SRR1633185 | panicle | WT | 3.66 | MC |
| SRR5278374 | pistil | "Balilla,S1" | 1.11 | MC |
| SRR5278375 | pistil | "Balilla,S1" | 1.37 | MC |
| SRR5278376 | pistil | "Balilla,S2" | 1.42 | MC |
| SRR5278377 | pistil | "Balilla,S2" | 1.09 | MC |
| SRR5278378 | pistil | "Balilla,S3" | 4.31 | MC |
| SRR5278379 | pistil | "Balilla,S3" | 3.74 | MC |
| SRR5126147 | root | "mock,1_day" | 1.08 | MC |
| SRR5126148 | root | "mock,1_day" | 0.95 | MC |
| SRR5126149 | root | "mock,1_day" | 0.42 | MC |
| SRR5126150 | root | "auxin(50CM_2,4_D),1_day" | 0.57 | MC |
| SRR5126151 | root | "auxin(50CM_2,4_D),1_day" | 0.44 | MC |
| SRR5126152 | root | "auxin(50CM_2,4_D),1_day" | 0.98 | MC |
| SRR5126153 | root | "mock,7_days" | 0.40 | MC |
| SRR5126155 | root | "mock,7_days" | 0.86 | MC |
| SRR5126157 | root | "mock,7_days" | 0.49 | MC |
| SRR5126159 | root | "auxin(50CM_2,4_D),7_days" | 1.05 | MC |
| SRR5126161 | root | "auxin(50CM_2,4_D),7_days" | 0.74 | MC |
| SRR5126163 | root | "auxin(50CM_2,4_D),7_days" | 1.33 | MC |
| SRR5126165 | root | "mock,14_days" | 0.53 | MC |
| SRR5126167 | root | "mock,14_days" | 0.45 | MC |
| SRR5126169 | root | "mock,14_days" | 0.65 | MC |
| SRR5126171 | root | "auxin(50CM_2,4_D),14_days" | 0.64 | MC |
| SRR5126173 | root | "auxin(50CM_2,4_D),14_days" | 0.47 | MC |
| SRR5126175 | root | "auxin(50CM_2,4_D),14_days" | 0.66 | MC |
| SRR3472897 | root | nontransgenic_rice_plant | 0.68 | MC |
| SRR3472900 | root | nontransgenic_rice_plant | 0.55 | MC |
| SRR1213694 | root | wt | 0.36 | MC |
| SRR4947478 | root | control | 1.57 | MC |
| SRR4947479 | root | control | 1.69 | MC |
| SRR4947480 | root | control | 1.81 | MC |
| SRR4947481 | root | control | 2.02 | MC |
| SRR4947482 | root | Al | 0.98 | MC |
| SRR4947483 | root | Al | 1.23 | MC |
| SRR4947484 | root | Al | 1.76 | MC |
| SRR4947485 | root | Al | 1.67 | MC |
| SRR4947487 | root | control | 1.36 | MC |
| SRR4947488 | root | control | 1.86 | MC |
| SRR4947489 | root | control | 1.62 | MC |
| SRR4947490 | root | Al | 1.30 | MC |
| SRR4947491 | root | Al | 1.77 | MC |
| SRR4947492 | root | Al | 1.00 | MC |
| SRR4947493 | root | Al | 2.09 | MC |
| SRR4947494 | root | control | 0.78 | MC |
| SRR4947497 | root | control | 2.45 | MC |
| SRR4947498 | root | Al | 2.15 | MC |
| SRR4947499 | root | Al | 2.28 | MC |
| SRR4947500 | root | Al | 1.21 | MC |
| SRR4947501 | root | Al | 2.06 | MC |
| SRR4947502 | root | control | 2.98 | MC |
| SRR4947503 | root | control | 1.37 | MC |
| SRR4947504 | root | control | 1.63 | MC |
| SRR4947505 | root | control | 1.58 | MC |
| SRR4947506 | root | Al | 1.02 | MC |
| SRR4947507 | root | Al | 2.11 | MC |
| SRR4947508 | root | Al | 1.45 | MC |
| SRR4947509 | root | Al | 1.43 | MC |
| SRR6502091 | root | 100 mM NaCl | 1.79 | MC |
| SRR6502092 | root | 100 mM NaCl | 2.06 | MC |
| SRR6502093 | root | 100 mM NaCl | 1.43 | MC |
| SRR6502094 | root | control | 0.53 | MC |
| SRR6502095 | root | control | 0.61 | MC |
| SRR6502096 | root | control | 0.66 | MC |
| SRR6502103 | root | 100 mM NaCl | 2.12 | MC |
| SRR6502104 | root | 100 mM NaCl | 1.58 | MC |
| SRR6502105 | root | 100 mM NaCl | 1.86 | MC |
| SRR6502106 | root | control | 1.30 | MC |
| SRR6502107 | root | control | 1.16 | MC |
| SRR6502108 | root | control | 1.14 | MC |
| SRR1740434 | root_differentiation_zone | wt | 2.79 | MC |
| SRR1740435 | root_differentiation_zone | wt | 1.64 | MC |
| SRR1740436 | root_differentiation_zone | wt | 2.09 | MC |
| SRR1740431 | root_elongation_zone | wt | 2.03 | MC |
| SRR1740432 | root_elongation_zone | wt | 1.04 | MC |
| SRR1740433 | root_elongation_zone | wt | 1.13 | MC |
| SRR1740428 | root_meristematic_zone | wt | 1.40 | MC |
| SRR1740429 | root_meristematic_zone | wt | 0.74 | MC |
| SRR1740430 | root_meristematic_zone | wt | 1.13 | MC |
| SRR6441554 | seedling | wild_type | 0.37 | MC |
| SRR6441555 | seedling | wild_type | 0.64 | MC |
| SRR2154086 | seedling | wt | 0.80 | MC |
| SRR2154082 | seedling | wt | 0.52 | MC |
| SRR2154083 | seedling | wt | 0.54 | MC |
| SRR2154084 | seedling | wt | 0.47 | MC |
| SRR2154085 | seedling | wt | 0.35 | MC |
| SRR2154087 | seedling | wt | 0.68 | MC |
| SRR3098742 | seedling | wt | 0.34 | MC |
| SRR3098743 | seedling | wt | 0.19 | MC |
| SRR2857720 | seedling | drought_stress_1h | 0.50 | MC |
| SRR2857721 | seedling | drought_stress_6h | 0.51 | MC |
| SRR1288363 | shoot | "none,3_days_post_infection" | 2.41 | MC |
| SRR1288365 | shoot | "none,7_days_post_infection" | 4.09 | MC |
| SRR1288366 | shoot | "none,7_days_post_infection" | 7.22 | MC |
| SRR1288368 | shoot | "roots_rot_nematode_(H._oryzae),3_days_post_infection" | 11.11 | MC |
| SRR1288369 | shoot | "roots_rot_nematode_(H._oryzae),7_days_post_infection" | 8.85 | MC |
| SRR1288370 | shoot | "roots_rot_nematode_(H._oryzae),7_days_post_infection" | 6.50 | MC |
| SRR4841740 | shoot | shoots_of_Meloidogyne_graminicola_infected_3_dai | 5.15 | MC |
| SRR4841741 | shoot | shoots_of_Meloidogyne_graminicola_infected_3_dai | 3.21 | MC |
| SRR4841742 | shoot | shoots_of_Meloidogyne_graminicola_infected_7_dai | 4.34 | MC |
| SRR5796940 | shoot | "Control,22C for 10 min" | 0.32 | MC |
| SRR5796941 | shoot | "Control,22C for 10 min" | 0.44 | MC |
| SRR5796946 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 0.54 | MC |
| SRR5796947 | shoot | "Control,22C for 10 min, then 30C for 1h50 min" | 0.43 | MC |
| SRR5796948 | shoot | "Control,22C for 10 min, then 30C for 9h50 min" | 0.33 | MC |
| SRR5796953 | shoot | "Heat,42C for 10 min, then 30C for 10 min" | 0.29 | MC |
| SRR5796959 | shoot | "Heat,42C for 10 min, then 30C for 9h50 min" | 0.42 | MC |
| SRR5052708 | shoot_apical_meristem | 0_days_after_shift | 4.71 | MC |
| SRR5052709 | shoot_apical_meristem | 0_days_after_shift | 5.02 | MC |
| SRR5052710 | shoot_apical_meristem | 0_days_after_shift | 5.26 | MC |
| SRR5052711 | shoot_apical_meristem | 4_days_after_shift | 3.82 | MC |
| SRR5052713 | shoot_apical_meristem | 4_days_after_shift | 5.41 | MC |
| SRR5052714 | shoot_apical_meristem | 4_days_after_shift | 4.64 | MC |
| SRR5052716 | shoot_apical_meristem | 8_days_after_shift | 3.23 | MC |
| SRR5052719 | shoot_apical_meristem | 8_days_after_shift | 5.57 | MC |
| SRR5052720 | shoot_apical_meristem | 8_days_after_shift | 3.98 | MC |
| SRR5052721 | shoot_apical_meristem | 12_days_after_shift | 7.79 | MC |
| SRR5052722 | shoot_apical_meristem | 12_days_after_shift | 6.67 | MC |
| SRR5052723 | shoot_apical_meristem | 12_days_after_shift | 7.29 | MC |
| SRR5052724 | shoot_apical_meristem | 0_days_after_shift | 3.03 | MC |
| SRR5052725 | shoot_apical_meristem | 0_days_after_shift | 4.30 | MC |
| SRR5052726 | shoot_apical_meristem | 0_days_after_shift | 4.44 | MC |
| SRR5052727 | shoot_apical_meristem | 4_days_after_shift | 3.45 | MC |
| SRR5052728 | shoot_apical_meristem | 4_days_after_shift | 4.01 | MC |
| SRR5052730 | shoot_apical_meristem | 4_days_after_shift | 3.76 | MC |
| SRR5052731 | shoot_apical_meristem | 8_days_after_shift | 2.97 | MC |
| SRR5052732 | shoot_apical_meristem | 8_days_after_shift | 3.99 | MC |
| SRR5052733 | shoot_apical_meristem | 8_days_after_shift | 3.84 | MC |
| SRR5052734 | shoot_apical_meristem | 12_days_after_shift | 3.50 | MC |
| SRR5052735 | shoot_apical_meristem | 12_days_after_shift | 3.77 | MC |
| SRR1617553 | shoot_apical_meristem | no collect | 1.90 | MC |
| SRR1617554 | shoot_apical_meristem | no collect | 1.67 | MC |
| SRR1617556 | shoot_apical_meristem | no collect | 1.07 | MC |
| SRR1617557 | shoot_apical_meristem | no collect | 3.33 | MC |
| SRR1617558 | shoot_apical_meristem | no collect | 1.75 | MC |
| SRR1617559 | shoot_apical_meristem | no collect | 2.75 | MC |
| SRR3129124 | spikelet | Wild_type_9522_S5 | 4.54 | MC |
| SRR3129128 | spikelet | Wild_type_9522_S7 | 3.25 | MC |
| SRR3129129 | spikelet | Wild_type_9522_S7 | 4.29 | MC |
| SRR7760295 | spikelet | high temperature treatment (38C) for 7 hrs | 0.35 | MC |
| SRR7760300 | spikelet | high temperature treatment (38C) for 7 hrs | 0.23 | MC |
| SRR7760301 | spikelet | high temperature treatment (38C) for 7 hrs | 0.21 | MC |
| SRR7760302 | spikelet | high temperature treatment (38C) for 7 hrs | 0.23 | MC |