Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.11.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05783	0.964
27DAP/17DAP	1.06232	0.941
39DAP/27DAP	0.7203	0.564
41DAP/39DAP	1.11712	1
42DAP/41DAP	0.70805	0.774
43DAP/42DAP	0.96826	0.91
47DAP/43DAP	1.2194	0.689
52DAP/47DAP	1.6812	0.407
57DAP/52DAP	0.83024	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96748	0.513
17DAP/reference	1.14302	0.185
27DAP/reference	1.02273	1
39DAP/reference	0.96962	0.691
41DAP/reference	1.23917	0.043
42DAP/reference	0.78353	0.035
43DAP/reference	1.0789	0.202
47DAP/reference	0.85611	0.019
52DAP/reference	0.95603	0.405
57DAP/reference	0.72382	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13947	0.708
27DAP/17DAP	1.00922	1
39DAP/27DAP	0.88212	0.469
41DAP/39DAP	1.01043	0.973
42DAP/41DAP	0.71249	0.312
43DAP/42DAP	1.4928	0.176
47DAP/43DAP	1.03058	0.947
52DAP/47DAP	1.42455	0.356
57DAP/52DAP	1.30837	0.251
57DAP/7DAP	1.373	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26192	0.043
17DAP/reference	1.2746	0.064
27DAP/reference	1.33564	0.049
39DAP/reference	1.11578	0.909
41DAP/reference	0.91604	0.247
42DAP/reference	1.09929	0.405
43DAP/reference	1.43404	0.023
47DAP/reference	0.94337	0.504
52DAP/reference	1.04453	0.886
57DAP/reference	1.19171	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04303	1
17DAP/reference	1.03319	0.805
27DAP/reference	0.79848	0.104
39DAP/reference	0.93058	0.37
41DAP/reference	0.81224	0.052
42DAP/reference	0.78416	0.081
43DAP/reference	0.84303	0.14
47DAP/reference	0.87831	0.11
52DAP/reference	0.92665	0.351
57DAP/reference	1.22961	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45007	0.017
17DAP/reference	1.17722	0.467
27DAP/reference	1.60484	0.02
39DAP/reference	1.24035	0.211
41DAP/reference	1.29782	0.047
42DAP/reference	1.07844	0.802
43DAP/reference	1.36173	0.439
47DAP/reference	0.99166	0.61
52DAP/reference	1.41604	0.566
57DAP/reference	0.73398	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18261	0.966
26DAP/20DAP	0.90541	1
34DAP/26DAP	0.96197	0.988
51DAP/34DAP	1.61856	0.936
52DAP/51DAP	1.00615	1
53DAP/52DAP	1.12571	0.517
55DAP/53DAP	1.22727	0.981
57DAP/55DAP	0.83565	0.443
62DAP/57DAP	0.99013	1
68DAP/62DAP	0.95834	0.863
68DAP/14DAP	0.83405

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65465	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.05124
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	26.4645

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	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.9603	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.28884
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.19544
WT/WTpooled	1.29335

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	0.81818	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	2.11831	0.921
DC3000/delta hrp 6h	1.01483	1
DC3000/delta hrp 12h	0.94762	1
DC3000/delta hrp 24h	1.51778	0.077

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	0.95507	0.983

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9093	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99215	1
Var 0h	0.79527	1
Var 12h I row2-row1	1.27892	0.208
Var 12h NI row2-row1	0.94733	0.546
Var 36h I row2-row1	1.19641	0.283
Var 36h NI row2-row1	1.08974	0.276
Var 60h I row2-row1	0.98496	1
Var 60h NI row2-row1	1.15189	0.904
Time course 0hI-0hNI	1.23599	0.764
Time course 12hI-12hNI	0.99794	1
Time course 36hI-36hNI	0.99282	0.654
Time course 60hI-60hNI	0.68376	0.009

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)	15.4051	0.318
transgenic ySAMdc/azygous control (breaker)	0.86133	1
transgenic ySAMdc/azygous control (red)	1.70348	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94869	0.085

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90625	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.33846	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A