Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.10.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72856	0.232
27DAP/17DAP	1.11148	1
39DAP/27DAP	1.22651	0.387
41DAP/39DAP	0.74378	0.112
42DAP/41DAP	1.07247	0.931
43DAP/42DAP	1.15414	1
47DAP/43DAP	0.96122	0.84
52DAP/47DAP	1.0171	0.971
57DAP/52DAP	1.06046	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83897	0.145
17DAP/reference	0.64875	0.009
27DAP/reference	0.81291	0.036
39DAP/reference	0.65973	0.015
41DAP/reference	0.55789	0.016
42DAP/reference	0.9287	0.188
43DAP/reference	0.77415	0.021
47DAP/reference	0.90136	0.137
52DAP/reference	1.31354	0.096
57DAP/reference	1.04674	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03184	0.762
27DAP/17DAP	1.02207	0.945
39DAP/27DAP	0.96199	0.775
41DAP/39DAP	1.1118	0.914
42DAP/41DAP	1.0423	0.824
43DAP/42DAP	0.89483	0.269
47DAP/43DAP	0.94284	0.757
52DAP/47DAP	0.87377	0.169
57DAP/52DAP	0.95812	0.637
57DAP/7DAP	0.92424	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.45635	0.067
17DAP/reference	0.23078	0.011
27DAP/reference	0.20294	0.01
39DAP/reference	0.16301	0.011
41DAP/reference	0.62684	0.116
42DAP/reference	0.24366	0.01
43DAP/reference	0.17646	0.009
47DAP/reference	0.70089	0.222
52DAP/reference	0.16338	0.009
57DAP/reference	0.16019	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84762	0.222
17DAP/reference	0.70294	0.01
27DAP/reference	1.2945	0.488
39DAP/reference	1.34166	0.514
41DAP/reference	1.80288	0.015
42DAP/reference	1.32512	0.009
43DAP/reference	0.37738	0.007
47DAP/reference	0.81238	0.041
52DAP/reference	0.9959	0.666
57DAP/reference	0.52054	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.77582	0.112
17DAP/reference	0.73277	0.186
27DAP/reference	0.341	0.031
39DAP/reference	0.34597	0.009
41DAP/reference	0.413	0.027
42DAP/reference	0.49017	0.041
43DAP/reference	0.94059	0.206
47DAP/reference	0.93629	0.348
52DAP/reference	0.32195	0.062
57DAP/reference	2.711	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89903	1
26DAP/20DAP	1.24577	0.322
34DAP/26DAP	0.97107	0.972
51DAP/34DAP	0.81967	0.079
52DAP/51DAP	1.06932	0.689
53DAP/52DAP	1.1831	0.196
55DAP/53DAP	1.12682	0.806
57DAP/55DAP	0.74442	0.171
62DAP/57DAP	1.45825	0.133
68DAP/62DAP	2.86798	0.305
68DAP/14DAP	5.36807	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.55533	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.02834	0.058
Mature Green Tomato/Ripe Tomato	1.52019	0.018
Immature Eggplant/Mature Eggplant	0.43664	0.062
Ripe Pepper/Ripe Tomato	1.66882
Mature Eggplant/Ripe Tomato	6.7256

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.47661
12-2/M82	N/A	N/A
12-4/M82	1.18705	1
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	1.02349	0.967
4-1-1/M82	N/A	N/A
4-1/M82	1.54303
4-3-2/M82	1.64374
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	0.84238
7-2/M82	N/A	N/A
9-3-2/M82	1.31189	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.37156	0.277
IL2-6/WTpooled	1.14068	1
IL7-5/WTpooled	1.06513
IL7-3/WTpooled	1.28242	1
IL12-4/WTpooled	1.92319	0.624
IL1-4/WTpooled	1.09705	1
WT/WTpooled	0.99619	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	0.94796	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92942	1
DC3000/delta hrp 6h	1.16883	1
DC3000/delta hrp 12h	0.96848	1
DC3000/delta hrp 24h	7.76322	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17921	0.081
DC3000 delta B/DC3000 delta AB	1.08166	0.415

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1136	1
Exp 36h	0.81265	0.661
Exp 60h	0.77889	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00021	1
Var 0h	0.77318	1
Var 12h I row2-row1	0.92471	0.565
Var 12h NI row2-row1	1.03723	1
Var 36h I row2-row1	1.00637	1
Var 36h NI row2-row1	0.90323	0.329
Var 60h I row2-row1	0.81925	0.374
Var 60h NI row2-row1	0.91244	0.932
Time course 0hI-0hNI	1.02699	0.867
Time course 12hI-12hNI	1.0144	0.868
Time course 36hI-36hNI	1.21028	0.005
Time course 60hI-60hNI	1.18342	0.08

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)	0.90416	0.391
transgenic ySAMdc/azygous control (breaker)	0.88383	0.49
transgenic ySAMdc/azygous control (red)	1.11807	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81051	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.17119	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13837	0.14
Manapal/WT (break)	1.24065	0.381
Manapal/WT (red)	1.13666	0.222