Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.17.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79541	0.318
27DAP/17DAP	1.0619	1
39DAP/27DAP	0.98714	0.769
41DAP/39DAP	1.05285	0.728
42DAP/41DAP	0.84099	0.774
43DAP/42DAP	1.02324	1
47DAP/43DAP	0.90438	0.667
52DAP/47DAP	1.37402	0.525
57DAP/52DAP	1.33075	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22379	0.022
17DAP/reference	0.90319	0.194
27DAP/reference	0.97695	0.623
39DAP/reference	0.96919	0.651
41DAP/reference	0.90188	0.267
42DAP/reference	1.03832	0.485
43DAP/reference	0.99389	0.82
47DAP/reference	0.94939	0.174
52DAP/reference	1.11009	0.256
57DAP/reference	1.17566	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9831	0.716
27DAP/17DAP	1.04464	1
39DAP/27DAP	0.87221	0.136
41DAP/39DAP	1.21549	0.682
42DAP/41DAP	0.76931	0.17
43DAP/42DAP	1.34568	0.192
47DAP/43DAP	1.70801	0.352
52DAP/47DAP	1.09456	0.776
57DAP/52DAP	1.42019	0.253
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77754	0.059
17DAP/reference	1.1981	0.627
27DAP/reference	1.00502	0.53
39DAP/reference	1.11994	0.141
41DAP/reference	1.21377	0.062
42DAP/reference	1.13866	0.889
43DAP/reference	1.05104	0.83
47DAP/reference	0.93737	0.383
52DAP/reference	1.22078	0.008
57DAP/reference	0.97704	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02215	0.842
17DAP/reference	1.01921	1
27DAP/reference	0.9138	0.229
39DAP/reference	0.92569	0.147
41DAP/reference	1.20296	0.142
42DAP/reference	1.11484	0.39
43DAP/reference	1.01773	0.814
47DAP/reference	1.31651	0.035
52DAP/reference	0.94369	0.302
57DAP/reference	1.26187	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34378	0.057
17DAP/reference	0.82687	0.214
27DAP/reference	1.11122	1
39DAP/reference	1.16749	0.353
41DAP/reference	1.10369	0.521
42DAP/reference	0.81794	0.036
43DAP/reference	1.23212	0.069
47DAP/reference	0.82686	0.139
52DAP/reference	1.03539	1
57DAP/reference	1.07681	0.549

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21604	0.631
26DAP/20DAP	1.49183	0.256
34DAP/26DAP	1.04917	1
51DAP/34DAP	0.67296	0.097
52DAP/51DAP	1.08595	0.939
53DAP/52DAP	0.77286	0.374
55DAP/53DAP	0.88918	0.698
57DAP/55DAP	0.68437
62DAP/57DAP	1.08862	0.868
68DAP/62DAP	0.72261	0.245
68DAP/14DAP	1.07307	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6246	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69446
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.68301	0.051
Ripe Pepper/Ripe Tomato	1.13364	1
Mature Eggplant/Ripe Tomato	1.0083	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	1.27803
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	0.9797
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.83144
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09175	0.365
IL2-6/WTpooled	0.9541	1
IL7-5/WTpooled	1.2871	0.75
IL7-3/WTpooled	1.18473	1
IL12-4/WTpooled	1.01322	1
IL1-4/WTpooled	1.00908	1
WT/WTpooled	0.94844	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	1.99389	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99618	1
DC3000/delta hrp 6h	1.44693	1
DC3000/delta hrp 12h	0.92897	1
DC3000/delta hrp 24h	1.103	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.55851	0.081
DC3000 delta B/DC3000 delta AB	0.98766	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.53772	0.254
Exp 36h	1.35907	0.489
Exp 60h	1.63305	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00147	1
Var 0h	0.68785	0.291
Var 12h I row2-row1	0.90347	0.418
Var 12h NI row2-row1	0.98023	0.235
Var 36h I row2-row1	1.18006	1
Var 36h NI row2-row1	1.10654	1
Var 60h I row2-row1	0.69904	0.306
Var 60h NI row2-row1	0.80449	0.335
Time course 0hI-0hNI	1.07745	0.63
Time course 12hI-12hNI	1.08395	0.55
Time course 36hI-36hNI	2.05948	0.005
Time course 60hI-60hNI	5.60102	0.008

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)	1.13507	0.326
transgenic ySAMdc/azygous control (breaker)	0.77029	0.173
transgenic ySAMdc/azygous control (red)	0.90128	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00362	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.48472	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16738	1
Manapal/WT (break)	1.06706	1
Manapal/WT (red)	1.13492	1