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Omics level	Method	Platform	Subspecies	Tissues	GEO/IPX assession	File name
Transcriptome	Sequencing	Illumina HiSeq X Ten	Nipponbare	Leaf	GSM3699710
				Root	GSM3699711
				Stem	GSM3699712
				Ovary	GSM3699713
				Anther	GSM3699714
				Seed	GSM3699715
			93-11	Leaf	GSM3699716
				Root	GSM3699717
				Stem	GSM3699718
				Ovary	GSM3699719
				Anther	GSM3699720
				Seed	GSM3699721
Translatome		Illumina HiSeq X Ten	Nipponbare	Leaf	GSM3699722
				Root	GSM3699723
				Stem	GSM3699724
				Ovary	GSM3699725
				Anther	GSM3699726
				Seed	GSM3699727
			93-11	Leaf	GSM3699728
				Root	GSM3699729
				Stem	GSM3699730
				Ovary	GSM3699731
				Anther	GSM3699732
				Seed	GSM3699733
		BGISEQ-500	Nipponbare	Leaf	GSM3699734
				Root	GSM3699735
				Stem	GSM3699736
				Ovary	GSM3699737
				Anther	GSM3699738
				Seed	GSM3699739
			93-11	Leaf	GSM3699740
				Root	GSM3699741
				Stem	GSM3699742
				Ovary	GSM3699743
				Anther	GSM3699744
				Seed	GSM3699745
Proteome	DDA-based MS	AB SCIEX 5600	Nipponbare	Leaf	IPX0001209002	20170123_ZJ_Nip_LEAF_*.raw
		AB SCIEX 5600		Root		20170407_ZJ_RBQ_ROOT_*.raw
		AB SCIEX 5600		Stem		20170407_ZJ_RBQ_STEM_*.raw
		AB SCIEX 6600		Ovary		20170124_ZJ_Nip_Ovary_*.raw
		AB SCIEX 6600		Anther		20170317_ZJ_RBQ_Anther_*.raw
		AB SCIEX 5600		Seed		20170123_ZJ_Nip_SEED_*.raw
		AB SCIEX 6600	93-11	Leaf		20170317_ZJ_9311_LEAF_*.raw
		AB SCIEX 6600		Root		20170406_ZJ_9311_ROOT_*.raw
		AB SCIEX 5600		Stem		20170317_ZJ_9311_STEM_*.raw
		AB SCIEX 5600		Ovary		20170207_ZJ_9311_Ovary_*.raw
		AB SCIEX 5600		Anther		20170508_ZJ_9311_Anther_*.raw
		AB SCIEX 5600		Seed		20170123_ZJ_9311_SEED_*.raw
		Thermo Orbitrap Fusion Lumos	Nipponbare	Leaf	IPX0001209001	20170123_ZJ_Nip_LEAF_*.raw
				Root		20170407_ZJ_RBQ_ROOT_*.raw
				Stem		20170407_ZJ_RBQ_STEM_*.raw
				Ovary		20170124_ZJ_Nip_Ovary_*.raw
				Anther		20170317_ZJ_RBQ_Anther_*.raw
				Seed		20170123_ZJ_Nip_SEED_*.raw
			93-11	Leaf		20170317_ZJ_9311_LEAF_*.raw
				Root		20170406_ZJ_9311_ROOT_*.raw
				Stem		20170317_ZJ_9311_STEM_*.raw
				Ovary		20170207_ZJ_9311_Ovary_*.raw
				Anther		20170508_ZJ_9311_Anther_*.raw
				Seed		20170123_ZJ_9311_SEED_*.raw
	DIA-based HRM-MS	Thermo Orbitrap Fusion Lumos	Spectrum Library		IPX0001209003	20170310_ZJ_DDA_LIB_*.raw
			Nipponbare	Leaf		20170310_ZJ_DIA_12_RBQ-Leaf.raw
				Root		20170310_ZJ_DIA_10_RBQ-Root.raw
				Stem		20170310_ZJ_DIA_9_RBQ-Stem.raw
				Ovary		20170310_ZJ_DIA_8_RBQ-Ovary.raw
				Anther		20170310_ZJ_DIA_7_RBQ-HY.raw
				Seed		20170310_ZJ_DIA_11_RBQ-Seed.raw
			93-11	Leaf		20170310_ZJ_DIA_6_9311-Leaf.raw
				Root		20170310_ZJ_DIA_4_9311-Root.raw
				Stem		20170310_ZJ_DIA_3_9311-Stem.raw
				Ovary		20170310_ZJ_DIA_2_9311-Ovary.raw
				Anther		20170310_ZJ_DIA_1_9311-HY.raw
				Seed		20170310_ZJ_DIA_5_9311-Seed.raw
	MRM-MS	Thermo Orbitrap Fusion Lumos			IPX0001209004