Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.533	0.014
27DAP/17DAP	0.62932	0.081
39DAP/27DAP	0.96153	0.67
41DAP/39DAP	0.90503	0.611
42DAP/41DAP	0.96393	1
43DAP/42DAP	0.96061	0.909
47DAP/43DAP	0.78614	0.35
52DAP/47DAP	1.25305	0.683
57DAP/52DAP	0.98217	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.47973	0.008
17DAP/reference	1.12959	0.112
27DAP/reference	1.13053	0.091
39DAP/reference	0.89967	0.076
41DAP/reference	0.97306	0.542
42DAP/reference	0.84224	0.001
43DAP/reference	0.95308	0.18
47DAP/reference	0.77533	0.001
52DAP/reference	0.8333	0.029
57DAP/reference	0.80347	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61224	0.032
27DAP/17DAP	1.35712	0.061
39DAP/27DAP	0.74172	0.046
41DAP/39DAP	0.53146	0.013
42DAP/41DAP	1.03734	0.879
43DAP/42DAP	1.17461	0.017
47DAP/43DAP	0.92439	0.402
52DAP/47DAP	0.98895	0.93
57DAP/52DAP	0.91654	0.216
57DAP/7DAP	0.63075	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40723	0.031
17DAP/reference	1.06215	0.199
27DAP/reference	0.88963	0.014
39DAP/reference	0.84981	0.011
41DAP/reference	0.85514	0.018
42DAP/reference	0.9152	0.034
43DAP/reference	0.82399	0.011
47DAP/reference	0.81212	0.057
52DAP/reference	0.79197	0.012
57DAP/reference	0.80177	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4162	0.054
17DAP/reference	1.44394	0.028
27DAP/reference	1.25952	0.139
39DAP/reference	0.82333	0.04
41DAP/reference	0.93425	0.089
42DAP/reference	0.88854	0.169
43DAP/reference	0.80561	0.016
47DAP/reference	0.76393	0.01
52DAP/reference	0.78846	0.013
57DAP/reference	0.70781	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74704	0.021
17DAP/reference	1.27468	0.113
27DAP/reference	1.26088	0.022
39DAP/reference	0.86494	0.016
41DAP/reference	0.88102	0.026
42DAP/reference	0.80167	0.02
43DAP/reference	0.79908	0.018
47DAP/reference	0.8638	0.006
52DAP/reference	0.73556	0.066
57DAP/reference	0.76814	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96524	1
26DAP/20DAP	1.12278	0.615
34DAP/26DAP	0.83035	0.087
51DAP/34DAP	0.61953	0.049
52DAP/51DAP	1.02816	0.708
53DAP/52DAP	0.9138	0.276
55DAP/53DAP	0.88724	0.077
57DAP/55DAP	1.00103	0.968
62DAP/57DAP	1.2189	0.185
68DAP/62DAP	0.90818	0.668
68DAP/14DAP	0.74299	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.58529	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.58902	0.058
Mature Green Tomato/Ripe Tomato	2.29646	0.331
Immature Eggplant/Mature Eggplant	0.40281	0.064
Ripe Pepper/Ripe Tomato	181.865	1
Mature Eggplant/Ripe Tomato	21.5301	0.25

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96961	0.944
1-1-2/M82	0.93806	1
12-2/M82	1.12325	1
12-4/M82	1.15858	1
1-3/M82	0.9348	0.501
2-1-1/M82	1.06164	0.764
2-1/M82	N/A	N/A
2-6/M82	1.11143	0.505
3-2/M82	0.87046	1
4-1-1/M82	1.02733	1
4-1/M82	0.76929	1
4-3-2/M82	0.74132	0.698
4-3/M82	0.64695
5-3/M82	0.93347	1
6-2/M82	1.08352	0.253
6-3/M82	1.13129	1
7-1/M82	0.7216
7-2/M82	1.00444	1
9-3-2/M82	0.79485	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.42003	0.243
IL2-6/WTpooled	2.75718	0.395
IL7-5/WTpooled	1.66535	0.792
IL7-3/WTpooled	0.41522	0.298
IL12-4/WTpooled	0.85706	1
IL1-4/WTpooled	0.63329	0.562
WT/WTpooled	0.95728	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	0.79189	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94815	1
DC3000/delta hrp 6h	0.93957	0.95
DC3000/delta hrp 12h	0.92345	1
DC3000/delta hrp 24h	0.76754	0.121

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.62847
DC3000 delta B/DC3000 delta AB	0.4902	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9873	1
Exp 36h	0.90118	0.623
Exp 60h	0.82874	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99204	1
Var 0h	1.0557	1
Var 12h I row2-row1	1.00064	1
Var 12h NI row2-row1	0.94938	0.713
Var 36h I row2-row1	1.00647	1
Var 36h NI row2-row1	1.1007	1
Var 60h I row2-row1	1.16176	0.562
Var 60h NI row2-row1	1.12142	0.904
Time course 0hI-0hNI	1.03374	0.852
Time course 12hI-12hNI	0.92693	0.33
Time course 36hI-36hNI	0.8565	0.023
Time course 60hI-60hNI	0.16795	0.005

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)	0.83402	0.348
transgenic ySAMdc/azygous control (breaker)	2.04383	1
transgenic ySAMdc/azygous control (red)	1.03987	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81651	0.078

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	4.70842	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32664	0.105
Manapal/WT (break)	1.49853	1
Manapal/WT (red)	1.27867	1