Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02554	0.847
27DAP/17DAP	1.39518	0.723
39DAP/27DAP	1.2694	0.816
41DAP/39DAP	1.21038	0.914
42DAP/41DAP	0.65664	0.774
43DAP/42DAP	0.98916	0.931
47DAP/43DAP	0.83494	0.546
52DAP/47DAP	0.94577	0.789
57DAP/52DAP	1.43734	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91837	0.172
17DAP/reference	0.86072	0.091
27DAP/reference	0.86684	0.078
39DAP/reference	1.00017	0.816
41DAP/reference	0.91992	0.201
42DAP/reference	0.85337	0.01
43DAP/reference	0.88227	0.103
47DAP/reference	0.94285	0.224
52DAP/reference	0.95696	0.33
57DAP/reference	1.03508	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48834	0.899
27DAP/17DAP	0.8921	0.782
39DAP/27DAP	1.31773	0.41
41DAP/39DAP	1.08734	0.876
42DAP/41DAP	0.98626	0.715
43DAP/42DAP	0.99395	0.96
47DAP/43DAP	1.09865	0.892
52DAP/47DAP	1.13085	0.987
57DAP/52DAP	1.3875	0.405
57DAP/7DAP	1.45982

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04377	0.65
17DAP/reference	0.87105	0.025
27DAP/reference	0.92068	0.088
39DAP/reference	0.94531	0.354
41DAP/reference	0.87234	0.103
42DAP/reference	1.38935	0.132
43DAP/reference	0.93778	0.23
47DAP/reference	1.02569	1
52DAP/reference	0.8117	0.043
57DAP/reference	0.78911	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97818	0.736
17DAP/reference	0.76704	0.022
27DAP/reference	0.96547	0.467
39DAP/reference	0.94048	0.339
41DAP/reference	1.00872	0.749
42DAP/reference	0.99278	0.655
43DAP/reference	1.10848	0.929
47DAP/reference	0.88448	0.056
52DAP/reference	0.88055	0.072
57DAP/reference	0.7713	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06253	0.545
17DAP/reference	1.15748	0.394
27DAP/reference	1.16989	0.033
39DAP/reference	0.95525	0.43
41DAP/reference	1.16378	0.734
42DAP/reference	0.89946	0.361
43DAP/reference	0.90061	0.256
47DAP/reference	1.05154	1
52DAP/reference	0.91715	0.334
57DAP/reference	1.10661	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04023	1
26DAP/20DAP	0.87702	1
34DAP/26DAP	0.92329
51DAP/34DAP	0.85147	0.743
52DAP/51DAP	1.25738	0.651
53DAP/52DAP	1.23995	0.25
55DAP/53DAP	1.21507	0.681
57DAP/55DAP	0.84818	0.506
62DAP/57DAP	1.21928	0.833
68DAP/62DAP	1.3348	0.737
68DAP/14DAP	1.27435	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.46357	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.87571
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.16004
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03982
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.31097	1
IL12-4/WTpooled	1.42519
IL1-4/WTpooled	0.95736
WT/WTpooled	0.81316	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	0.74819	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83921	0.245
DC3000/delta hrp 6h	0.99968	0.95
DC3000/delta hrp 12h	1.12469	1
DC3000/delta hrp 24h	1.02542	1

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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	0.94565	0.457
Var 12h I row2-row1	1.08391	0.125
Var 12h NI row2-row1	0.92045	0.82
Var 36h I row2-row1	0.76463
Var 36h NI row2-row1	1.05261
Var 60h I row2-row1	1.1934	1
Var 60h NI row2-row1	0.59544	1
Time course 0hI-0hNI	1.248	0.344
Time course 12hI-12hNI	0.89	0.698
Time course 36hI-36hNI	0.82653	0.134
Time course 60hI-60hNI	0.68008	0.006

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.44179	1
transgenic ySAMdc/azygous control (red)	1.49968	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00566	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92014	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8656	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A