Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.14.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6129	0.153
27DAP/17DAP	1.0834	0.877
39DAP/27DAP	1.48138	0.361
41DAP/39DAP	0.69422	0.22
42DAP/41DAP	1.56869	0.126
43DAP/42DAP	1.18059	0.937
47DAP/43DAP	1.15291	0.847
52DAP/47DAP	2.12024	0.12
57DAP/52DAP	1.18428	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05919	0.76
17DAP/reference	1.00256	1
27DAP/reference	1.04049	0.569
39DAP/reference	1.05132	0.352
41DAP/reference	1.0351	0.963
42DAP/reference	1.15502	1
43DAP/reference	1.07751	0.942
47DAP/reference	1.20789	0.018
52DAP/reference	1.0776	0.8
57DAP/reference	0.55164

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.62522	0.107
27DAP/17DAP	0.93528	0.878
39DAP/27DAP	0.63995
41DAP/39DAP	0.58742	0.072
42DAP/41DAP	0.49995
43DAP/42DAP	1.80633	0.014
47DAP/43DAP	N/A	N/A
52DAP/47DAP	0.58107
57DAP/52DAP	0.46836	0.052
57DAP/7DAP	1.19333	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.60035	0.053
17DAP/reference	1.94037	0.754
27DAP/reference	2.41189	0.006
39DAP/reference	2.7265	0.006
41DAP/reference	2.28498	0.011
42DAP/reference	2.56919	0.006
43DAP/reference	2.85259	0.006
47DAP/reference	1.51333	0.458
52DAP/reference	2.08833	0.007
57DAP/reference	2.28137	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00893	0.952
17DAP/reference	1.28378	0.068
27DAP/reference	1.29158	0.072
39DAP/reference	1.21582	0.309
41DAP/reference	1.48897	0.106
42DAP/reference	1.03603	0.655
43DAP/reference	0.90141	0.43
47DAP/reference	1.07446	1
52DAP/reference	1.27002	0.007
57DAP/reference	1.2508	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68528	0.019
17DAP/reference	1.26853	0.595
27DAP/reference	1.97794	0.078
39DAP/reference	1.79443	0.021
41DAP/reference	1.62201	0.033
42DAP/reference	1.44323	0.015
43DAP/reference	1.8725	0.007
47DAP/reference	0.90316	0.132
52DAP/reference	2.43352	0.06
57DAP/reference	1.56292	0.57

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.53258
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.35412
52DAP/51DAP	1.57349	0.035
53DAP/52DAP	1.33134	0.608
55DAP/53DAP	1.25064	0.826
57DAP/55DAP	0.98667	0.914
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69403	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.88446
IL1-4/WTpooled	0.85204
WT/WTpooled	1.16965	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	1.19901
Var 0h	0.64339	0.933
Var 12h I row2-row1	0.90109	0.77
Var 12h NI row2-row1	0.75656
Var 36h I row2-row1	0.54689
Var 36h NI row2-row1	2.66739	1
Var 60h I row2-row1	1.06186
Var 60h NI row2-row1	1.99997	1
Time course 0hI-0hNI	1.09209	1
Time course 12hI-12hNI	1.47725	0.734
Time course 36hI-36hNI	0.98781	0.468
Time course 60hI-60hNI	0.86323	0.319

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92392	0.256

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.55608	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.5424	0.222