Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.5.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.60132	0.037
27DAP/17DAP	1.03031	1
39DAP/27DAP	0.9603	0.682
41DAP/39DAP	1.00733	0.92
42DAP/41DAP	1.15136	0.806
43DAP/42DAP	1.46348	0.417
47DAP/43DAP	1.12596	0.633
52DAP/47DAP	1.11579	0.957
57DAP/52DAP	0.92343	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95265	0.412
17DAP/reference	1.25916	0.036
27DAP/reference	1.01317	0.966
39DAP/reference	0.97442	0.704
41DAP/reference	1.2107	0.038
42DAP/reference	0.91185	0.078
43DAP/reference	1.02606	0.982
47DAP/reference	0.89883	0.032
52DAP/reference	0.87946	0.172
57DAP/reference	0.80514	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13567	0.675
27DAP/17DAP	1.13547	0.685
39DAP/27DAP	1.04444	1
41DAP/39DAP	0.87406	0.495
42DAP/41DAP	1.14112	0.763
43DAP/42DAP	1.09623	0.788
47DAP/43DAP	1.04206	1
52DAP/47DAP	1.11505	0.71
57DAP/52DAP	1.0871	0.895
57DAP/7DAP	1.19374	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.48615	0.025
17DAP/reference	1.72449	0.008
27DAP/reference	1.10881	0.301
39DAP/reference	1.16616	0.007
41DAP/reference	1.35214	0.013
42DAP/reference	1.28612	0.03
43DAP/reference	1.04871	0.386
47DAP/reference	0.88682	0.222
52DAP/reference	1.05748	0.459
57DAP/reference	0.92254	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28588	0.049
17DAP/reference	1.18025	0.151
27DAP/reference	1.00841	0.79
39DAP/reference	0.94622	0.235
41DAP/reference	0.90107	0.188
42DAP/reference	0.87474	0.089
43DAP/reference	0.97107	0.539
47DAP/reference	0.82254	0.012
52DAP/reference	1.14044	0.368
57DAP/reference	1.23987	0.155

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.79528	0.015
17DAP/reference	1.29952	0.376
27DAP/reference	1.14525	0.105
39DAP/reference	1.14676	0.146
41DAP/reference	0.9815	0.459
42DAP/reference	0.83551	0.059
43DAP/reference	0.86829	0.197
47DAP/reference	1.02435	0.966
52DAP/reference	0.80772	0.145
57DAP/reference	0.77813	0.069

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12621	0.817
26DAP/20DAP	1.16582	1
34DAP/26DAP	0.85875	0.675
51DAP/34DAP	0.80437	0.328
52DAP/51DAP	1.22228	0.542
53DAP/52DAP	1.17264	0.517
55DAP/53DAP	1.4999	0.733
57DAP/55DAP	0.86471	0.506
62DAP/57DAP	1.15029	0.35
68DAP/62DAP	0.66586	0.046
68DAP/14DAP	0.66114	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92471	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.74819	0.209
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.05933	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07058
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.94379	0.619
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	0.80646
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	0.86182	0.642
6-2/M82	N/A	N/A
6-3/M82	0.91248
7-1/M82	0.75746
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	0.92139	1
IL2-6/WTpooled	1.24007	0.659
IL7-5/WTpooled	1.022	1
IL7-3/WTpooled	1.02592	1
IL12-4/WTpooled	0.84019	0.554
IL1-4/WTpooled	1.0886	1
WT/WTpooled	0.91172	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	0.80918	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16266	0.921
DC3000/delta hrp 6h	1.03979	0.95
DC3000/delta hrp 12h	0.86917	1
DC3000/delta hrp 24h	1.62632	0.043

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	1.08296	0.571

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7828	1
Exp 36h	0.86749	0.879
Exp 60h	0.89089	0.855

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	0.97001	1
Var 12h I row2-row1	0.94464	0.627
Var 12h NI row2-row1	1.34817	1
Var 36h I row2-row1	1.2257
Var 36h NI row2-row1	0.95348	0.61
Var 60h I row2-row1	0.78182	0.582
Var 60h NI row2-row1	1.09655	0.904
Time course 0hI-0hNI	0.91683	0.386
Time course 12hI-12hNI	0.95231	0.841
Time course 36hI-36hNI	0.82643	0.123
Time course 60hI-60hNI	0.70887	0.047

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)	1.09317	0.326
transgenic ySAMdc/azygous control (breaker)	1.28237	0.248
transgenic ySAMdc/azygous control (red)	1.28349	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9912	0.712

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)	3.20509	0.083
Manapal/WT (break)	2.58106	0.123
Manapal/WT (red)	1.65211	0.15