ATTED-II

ver.13.0

last update: 2021.11.10

Statistics for Coexpression data in ATTED-II

Coexpression data in ATTED-II ver. 9.1

Icon Species Version Number of genes Number of micrroarray chips or RNAseq runs Microarray platform Data source Release Date Codon score(E-2) Reproducibility score(E-1)
Arabidopsis
(tax:3702)
(KEGG:ath) 		Ath-m.7-1 20,819 16,033 microarray
(GPL198) 		ArrayExpress 2017.10.31
Ath-r.3-0 22,760 2,120 RNAseq
(illumina) 		DDBJ DRA 2017.10.30
Field mustard
(tax:3711)
(KEGG:brp) 		Bra-r.2-1 28,978 188 RNAseq
(illumina) 		DDBJ DRA 2017.10.31
Soybean
(tax:3847)
(KEGG:gmx) 		Gma-m.3-1 15,746 1,131 microarray
(GPL4592) 		ArrayExpress 2017.10.31
Gma-r.3-0 8,373 599 RNAseq
(illumina) 		DDBJ DRA 2017.10.30
Medicago
(tax:3880)
(KEGG:mtr)		 Mtr-m.3-1 20,376 975 microarray
(GPL4652) 		ArrayExpress 2017.10.31
Mtr-r.1-1 3,753 41 RNAseq
(illumina) 		DDBJ DRA 2017.10.30
Rice
(tax:39947)
(KEGG:osa) 		Osa-m.6-1 19,867 2,250 microarray
(GPL2025) 		ArrayExpress 2017.10.31
Osa-r.2-1 24,437 336 RNAseq
(illumina) 		DDBJ DRA 2017.10.31
Poplar
(tax:3697)
(KEGG:pop)		 Ppo-m.2-1 21,910 765 microarray
(GPL4359) 		ArrayExpress 2017.10.31
Tomato
(tax:4081)
(KEGG:sly)		 Sly-m.2-1 5,721 401 microarray
(GPL4741) 		ArrayExpress 2017.10.26
Sly-r.2-1 20,564 282 RNAseq
(illumina) 		DDBJ DRA 2017.10.26
Grape
(tax:29760)
(KEGG:vvi) 		Vvi-m.3-1 9,421 314 microarray
(GPL1320) 		ArrayExpress 2017.10.26
Vvi-r.1-1 18,587 346 RNAseq
(illumina) 		DDBJ DRA 2017.10.31
Maize
(tax:4577)
(KEGG:zma)		 Zma-m.3-1 10,777 806 microarray
(GPL4032) 		ArrayExpress 2017.10.31
Zma-r.2-1 32,274 1,794 RNAseq
(illumina) 		DDBJ DRA 2017.10.31

Old Coexpression data

ATTED-II ver. 8.0
Icon Species Version Number of genes Number of experiment Number of micrroarray chips or RNAseq runs Microarray platform Data source Release Date Codon score(E-2) Reproducibility score(E-1)
Arabidopsis
(tax:3702) 		Ath-m.6-0 20,836 999 15,275 microarray
(GPL198) 		ArrayExpress 2015.08.31 2.29 2.57
Ath-r.2-0 25,296 128 1,401 RNAseq
(illumina) 		DDBJ DRA 2015.08.31 1.67 2.20
Field mustard
(tax:3711) 		Bra-r.1-0 35,431 4 257 RNAseq
(illumina) 		DDBJ DRA 2015.08.31 1.63 1.25
Soybean
(tax:3847) 		Gma-m.2-0 15,902 38 1,115 microarray
(GPL4592) 		ArrayExpress 2015.08.31 1.63 1.61
Gma-r.1-0 42,787 33 410 RNAseq
(illumina) 		DDBJ DRA 2015.08.31 1.73 1.48
Medicago
(tax:3880)		 Mtr-m.2-0 6,226 63 909 microarray
(GPL4652) 		ArrayExpress 2015.08.31 1.08
Rice
(tax:39947) 		Osa-m.5-0 20,625 127 2,098 microarray
(GPL2025) 		ArrayExpress 2015.08.31 1.60 1.79
Osa-r.1-0 17,548 21 222 RNAseq
(illumina) 		DDBJ DRA 2015.08.31 1.49 1.64
Popular
(tax:3697)		 Ppo-m.1-0 21,909 23 404 microarray
(GPL4359) 		ArrayExpress 2013.05.23 1.29 1.59
Tomato
(tax:4081)		 Sly-m.1-0 5,786 24 401 microarray
(GPL4741) 		ArrayExpress 2015.08.31 1.07 1.51
Sly-r.1-0 23,195 27 288 RNAseq
(illumina) 		DDBJ DRA 2015.08.31 1.34 1.27
Grape
(tax:29760) 		Vvi-m.2-0 9,564 14 245 microarray
(GPL1320) 		ArrayExpress 2015.08.31 1.18 1.32
Maize
(tax:4577)		 Zma-m.2-0 11,069 57 755 microarray
(GPL4032) 		ArrayExpress 2015.08.31 1.62 1.94
Zma-r.1-0 22,592 49 1,571 RNAseq
(illumina) 		DDBJ DRA 2015.08.31 2.55 1.85
Species relationships on taxonomy:


ATTED-II ver. 7.0
Icon Species Version Number of genes Number of experiment Number of slides Microarray platform Data source Release Date GO score(E-4) Codon score(E-2)
Arabidopsis Ath.c5-0 20,836 737 11171 GPL198 ArrayExpress 2013.05.23 7.27 4.02
Arabidopsis Ath2.c1-0 25,838 28 328 RNAseq DNAnexus 2013.08.17 4.88 2.63
Rice Osa.c4-0 20,625 122 2005 GPL2025 ArrayExpress 2015.01.26
Soybean Gma.c1-0 15,902 31 938 GPL4592 ArrayExpress 2013.05.23 2.53
Maize Zma.c1-0 8,397 47 617 GPL4032 ArrayExpress 2013.05.23 1.96
Grape Vvi.c1-0 8,351 14 245 GPL1320 ArrayExpress 2013.05.23 1.42
Poplar Ppo.c1-0 21,909 23 404 GPL4359 ArrayExpress 2013.05.23 1.77
Medicago Mtr.c1-0 4,166 43 585 GPL4652 ArrayExpress 2013.05.23


Condition-Specific Coexpression data for Arabidopsis

Sample type Version Number of genes Number of TAIR-ID Number of slides Microarray platform Data source Release Date
Tissue Ath.c4-1_tis 20,969 1 236 GPL198 TAIR 2010.09.28
Abiotic stress Ath.c4-1_str 20,969 9 534 GPL198 TAIR 2010.09.28
Biotic stress Ath.c4-1_bio 20,969 6 200 GPL198 TAIR 2010.09.28
Hormone Ath.c4-1_hor 20,969 13 200 GPL198 TAIR 2010.09.28
Light Ath.c4-1_lig 20,969 1 48 GPL198 TAIR 2010.09.28