Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28601	0.381
27DAP/17DAP	0.85527	0.749
39DAP/27DAP	1.34679	0.729
41DAP/39DAP	0.68314	0.171
42DAP/41DAP	0.77756	0.774
43DAP/42DAP	1.18153	0.937
47DAP/43DAP	0.90709	0.625
52DAP/47DAP	1.62181	0.601
57DAP/52DAP	1.75152	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10022	0.116
17DAP/reference	1.01322	0.874
27DAP/reference	0.86223	0.054
39DAP/reference	0.85254	0.228
41DAP/reference	0.85054	0.021
42DAP/reference	0.91426	0.129
43DAP/reference	0.8696	0.026
47DAP/reference	0.85213	0.016
52DAP/reference	0.98528	0.504
57DAP/reference	0.95461	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82288	0.251
27DAP/17DAP	0.85254	0.614
39DAP/27DAP	1.17072	0.565
41DAP/39DAP	0.88606	0.53
42DAP/41DAP	0.98328	0.795
43DAP/42DAP	1.06924	0.699
47DAP/43DAP	1.01265	0.997
52DAP/47DAP	0.97241	0.901
57DAP/52DAP	0.91082	0.587
57DAP/7DAP	0.743	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07088	0.676
17DAP/reference	0.94636	0.338
27DAP/reference	1.07441	0.804
39DAP/reference	1.07133	0.436
41DAP/reference	0.94292	0.311
42DAP/reference	1.01755	0.713
43DAP/reference	1.02509	0.764
47DAP/reference	1.05007	1
52DAP/reference	0.84085	0.126
57DAP/reference	0.9317	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00909	0.951
17DAP/reference	0.983	0.659
27DAP/reference	0.90868	0.24
39DAP/reference	0.82664	0.064
41DAP/reference	0.87469	0.124
42DAP/reference	0.93794	0.15
43DAP/reference	0.98657	0.67
47DAP/reference	0.9049	0.159
52DAP/reference	0.90978	0.22
57DAP/reference	0.59498	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94606	0.422
17DAP/reference	0.9706	0.615
27DAP/reference	0.84566	0.058
39DAP/reference	0.78878	0.05
41DAP/reference	1.01921	1
42DAP/reference	0.91378	0.445
43DAP/reference	0.91867	0.197
47DAP/reference	0.826	0.052
52DAP/reference	0.75507	0.144
57DAP/reference	0.85414	0.041

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22966	0.966
26DAP/20DAP	0.77125	0.512
34DAP/26DAP	0.96222	0.944
51DAP/34DAP	1.14422	0.785
52DAP/51DAP	0.85389	1
53DAP/52DAP	1.48223	0.413
55DAP/53DAP	1.17492	0.614
57DAP/55DAP	1.62611	0.666
62DAP/57DAP	1.10746	0.935
68DAP/62DAP	0.79554	0.641
68DAP/14DAP	1.00335	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86746	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.37526	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.03192	1
Ripe Pepper/Ripe Tomato	2.36652
Mature Eggplant/Ripe Tomato	2.45982	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.41501	0.277
IL2-6/WTpooled	1.38733	0.419
IL7-5/WTpooled	1.04207	1
IL7-3/WTpooled	0.93994	1
IL12-4/WTpooled	1.391	0.595
IL1-4/WTpooled	1.0921	1
WT/WTpooled	1.0144	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	N/A	N/A

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99379	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06214	1
DC3000/delta hrp 24h	1.04207	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04655	1
Exp 36h	1.09257	1
Exp 60h	1.43609	0.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.85709	0.291
Var 12h I row2-row1	0.80112	0.77
Var 12h NI row2-row1	0.3187
Var 36h I row2-row1	0.77862	0.805
Var 36h NI row2-row1	6.2958
Var 60h I row2-row1	0.77408	0.952
Var 60h NI row2-row1	2.65551
Time course 0hI-0hNI	1.14351	0.246
Time course 12hI-12hNI	1.0362	0.854
Time course 36hI-36hNI	0.78949	0.159
Time course 60hI-60hNI	1.16255	0.06

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.6715	0.213
transgenic ySAMdc/azygous control (breaker)	0.9545	1
transgenic ySAMdc/azygous control (red)	1.15645	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98198	0.694

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9351	0.268

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00135	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.28271	0.133