Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.55603	0.615
27DAP/17DAP	1.18507	0.836
39DAP/27DAP	1.12427	0.833
41DAP/39DAP	1.11364	0.833
42DAP/41DAP	1.22893	0.938
43DAP/42DAP	1.03128	1
47DAP/43DAP	1.25279	0.49
52DAP/47DAP	1.17328	0.827
57DAP/52DAP	1.09541	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24224	0.045
17DAP/reference	1.21444	0.035
27DAP/reference	1.07303	0.232
39DAP/reference	1.00389	1
41DAP/reference	0.95461	0.114
42DAP/reference	1.06654	0.21
43DAP/reference	0.95717	0.429
47DAP/reference	0.93641	0.09
52DAP/reference	0.96147	0.371
57DAP/reference	0.9841	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88114	0.277
27DAP/17DAP	0.96033	0.821
39DAP/27DAP	1.07165	0.581
41DAP/39DAP	0.96984	0.945
42DAP/41DAP	1.01695	1
43DAP/42DAP	0.96792	0.576
47DAP/43DAP	0.97422	0.861
52DAP/47DAP	1.39104	0.174
57DAP/52DAP	1.47649	0.07
57DAP/7DAP	1.18545	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89734	0.183
17DAP/reference	0.93633	0.22
27DAP/reference	1.05369	0.664
39DAP/reference	0.84421	0.064
41DAP/reference	0.86562	0.107
42DAP/reference	0.87157	0.136
43DAP/reference	0.91346	0.22
47DAP/reference	0.79605	0.101
52DAP/reference	0.86859	0.179
57DAP/reference	0.82521	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04321	0.943
17DAP/reference	1.27155	0.021
27DAP/reference	1.09168	0.66
39DAP/reference	0.96389	0.33
41DAP/reference	0.93622	0.237
42DAP/reference	0.93055	0.189
43DAP/reference	1.11973	0.255
47DAP/reference	0.98315	0.487
52DAP/reference	0.98916	0.576
57DAP/reference	1.06192	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03416	0.809
17DAP/reference	1.15808	0.474
27DAP/reference	1.17712	0.052
39DAP/reference	0.98045	0.591
41DAP/reference	1.08104	0.818
42DAP/reference	1.09641	0.321
43DAP/reference	0.88302	0.056
47DAP/reference	1.10711	0.171
52DAP/reference	1.02554	0.781
57DAP/reference	0.91841	0.191

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09464	1
26DAP/20DAP	0.87262	1
34DAP/26DAP	1.29584	1
51DAP/34DAP	1.01748	0.967
52DAP/51DAP	1.80973	0.056
53DAP/52DAP	0.86252	0.307
55DAP/53DAP	1.53212	0.04
57DAP/55DAP	0.60269	0.028
62DAP/57DAP	1.31012	0.069
68DAP/62DAP	1.49465	0.713
68DAP/14DAP	1.41196	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.51585	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.40112	0.287
Mature Green Tomato/Ripe Tomato	0.68485	0.079
Immature Eggplant/Mature Eggplant	0.33551	0.058
Ripe Pepper/Ripe Tomato	2.36082
Mature Eggplant/Ripe Tomato	1.41784	1

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	0.88034	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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.59305
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	2.43365	1
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	1.10071

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.28172	0.277
IL2-6/WTpooled	0.75115	1
IL7-5/WTpooled	0.97338	1
IL7-3/WTpooled	1.45396	1
IL12-4/WTpooled	1.13127	0.839
IL1-4/WTpooled	1.34035	0.426
WT/WTpooled	1.115	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	1.02845	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.82975	1
DC3000/delta hrp 6h	1.06403	1
DC3000/delta hrp 12h	1.11221	1
DC3000/delta hrp 24h	0.85658	0.252

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05153	0.515
DC3000 delta B/DC3000 delta AB	1.25677	0.177

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91656	1
Exp 36h	0.79675	0.661
Exp 60h	0.70183	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07075	1
Var 0h	1.02287	1
Var 12h I row2-row1	0.92628	0.77
Var 12h NI row2-row1	0.95126	0.82
Var 36h I row2-row1	1.02785	0.908
Var 36h NI row2-row1	1.06482	1
Var 60h I row2-row1	0.94281	0.582
Var 60h NI row2-row1	0.9895	1
Time course 0hI-0hNI	1.01616	1
Time course 12hI-12hNI	1.01958	0.854
Time course 36hI-36hNI	1.09196	0.017
Time course 60hI-60hNI	1.12011	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)	0.9817	0.722
transgenic ySAMdc/azygous control (breaker)	0.73393	0.173
transgenic ySAMdc/azygous control (red)	0.93801	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.004	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.49101	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.52825	0.09
Manapal/WT (break)	1.21024	0.381
Manapal/WT (red)	1.38844	0.137