Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97692	0.788
27DAP/17DAP	1.20847	0.845
39DAP/27DAP	1.05284	0.899
41DAP/39DAP	1.24499	0.701
42DAP/41DAP	1.16899	0.852
43DAP/42DAP	1.01031	1
47DAP/43DAP	1.17199	0.733
52DAP/47DAP	0.90708	0.698
57DAP/52DAP	0.97304	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7776	0.03
17DAP/reference	0.95635	0.224
27DAP/reference	0.9126	0.07
39DAP/reference	0.93626	0.124
41DAP/reference	0.93678	0.114
42DAP/reference	0.84576	0.001
43DAP/reference	1.07762	0.083
47DAP/reference	1.34735	0.006
52DAP/reference	1.6714	0.008
57DAP/reference	1.74774	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99792	0.847
27DAP/17DAP	0.96621	0.878
39DAP/27DAP	1.08052	0.514
41DAP/39DAP	1.01244	1
42DAP/41DAP	1.00484	0.887
43DAP/42DAP	1.03516	0.746
47DAP/43DAP	1.04533	0.822
52DAP/47DAP	0.99556	0.951
57DAP/52DAP	0.94434	0.541
57DAP/7DAP	1.21143	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78122	0.078
17DAP/reference	0.86873	0.124
27DAP/reference	0.71235	0.01
39DAP/reference	0.93993	0.126
41DAP/reference	0.81947	0.079
42DAP/reference	0.76667	0.014
43DAP/reference	0.73515	0.013
47DAP/reference	0.80401	0.066
52DAP/reference	0.72729	0.013
57DAP/reference	0.70522	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89943	0.318
17DAP/reference	0.82898	0.014
27DAP/reference	0.77917	0.039
39DAP/reference	0.68335	0.009
41DAP/reference	0.71049	0.016
42DAP/reference	0.81153	0.037
43DAP/reference	0.86803	0.135
47DAP/reference	0.88977	0.079
52DAP/reference	0.73539	0.003
57DAP/reference	0.80904	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9722	0.526
17DAP/reference	0.83276	0.162
27DAP/reference	0.84005	0.073
39DAP/reference	0.8004	0.018
41DAP/reference	0.78519	0.028
42DAP/reference	0.83324	0.015
43DAP/reference	0.80886	0.095
47DAP/reference	1.11146	0.501
52DAP/reference	0.86178	0.289
57DAP/reference	2.73928	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04228	0.966
26DAP/20DAP	1.00026	1
34DAP/26DAP	0.98973	1
51DAP/34DAP	1.23409	0.044
52DAP/51DAP	1.04134	0.651
53DAP/52DAP	1.0138	0.91
55DAP/53DAP	1.00885	0.939
57DAP/55DAP	0.99996	0.93
62DAP/57DAP	1.08634	0.767
68DAP/62DAP	1.05791	0.956
68DAP/14DAP	0.89647	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72035	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81507	0.272
Mature Green Tomato/Ripe Tomato	0.9499	0.522
Immature Eggplant/Mature Eggplant	0.61874
Ripe Pepper/Ripe Tomato	1.46178	1
Mature Eggplant/Ripe Tomato	0.1386

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96212	0.944
1-1-2/M82	0.84385	0.958
12-2/M82	1.16238	1
12-4/M82	1.14346	1
1-3/M82	0.84588	0.378
2-1-1/M82	1.27898	0.232
2-1/M82	N/A	N/A
2-6/M82	1.00845	1
3-2/M82	0.94033	1
4-1-1/M82	0.97821	1
4-1/M82	0.98399	1
4-3-2/M82	1.1967	1
4-3/M82	0.62454	0.72
5-3/M82	0.97362	1
6-2/M82	0.86874	0.497
6-3/M82	1.02082	1
7-1/M82	1.05825
7-2/M82	1.06121	1
9-3-2/M82	1.00166	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06052	0.493
IL2-6/WTpooled	1.00268	1
IL7-5/WTpooled	1.1156
IL7-3/WTpooled	1.00032	1
IL12-4/WTpooled	1.126	0.695
IL1-4/WTpooled	1.09888	1
WT/WTpooled	0.95451	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	0.90492	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01832	0.921
DC3000/delta hrp 6h	0.97126	0.95
DC3000/delta hrp 12h	1.19297	1
DC3000/delta hrp 24h	1.16843	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22958	0.034
DC3000 delta B/DC3000 delta AB	1.0021	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05209	1
Exp 36h	0.91491	0.661
Exp 60h	0.95602	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98984	1
Var 0h	1.00979	1
Var 12h I row2-row1	1.08013	0.473
Var 12h NI row2-row1	1.10019	1
Var 36h I row2-row1	1.06697	1
Var 36h NI row2-row1	0.97154	0.791
Var 60h I row2-row1	1.25254	1
Var 60h NI row2-row1	1.11285	0.904
Time course 0hI-0hNI	1.02773	0.799
Time course 12hI-12hNI	1.06386	0.615
Time course 36hI-36hNI	1.05885	0.248
Time course 60hI-60hNI	1.23464	0.015

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)	1.02824	0.699
transgenic ySAMdc/azygous control (breaker)	1.17687	1
transgenic ySAMdc/azygous control (red)	0.73807	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02227	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.37107	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53144	0.307
Manapal/WT (break)	3.296	0.14
Manapal/WT (red)	2.97316	0.137