Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.9.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00834	0.891
27DAP/17DAP	0.91653	0.827
39DAP/27DAP	1.1777	0.53
41DAP/39DAP	0.811	0.328
42DAP/41DAP	1.34588	0.772
43DAP/42DAP	1.13246	1
47DAP/43DAP	0.75601	0.266
52DAP/47DAP	1.14051	0.941
57DAP/52DAP	1.07724	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2379	0.17
17DAP/reference	1.14889	0.185
27DAP/reference	1.06272	0.599
39DAP/reference	1.16183	0.165
41DAP/reference	1.19698	0.365
42DAP/reference	1.28925	0.001
43DAP/reference	1.20677	0.01
47DAP/reference	1.24108	0.008
52DAP/reference	0.91214	0.158
57DAP/reference	0.89713	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2592	0.05
27DAP/17DAP	0.9489	0.648
39DAP/27DAP	0.92633	0.482
41DAP/39DAP	1.22619	0.514
42DAP/41DAP	0.99673	0.823
43DAP/42DAP	0.74924	0.022
47DAP/43DAP	0.92987	0.569
52DAP/47DAP	0.87196	0.452
57DAP/52DAP	1.03499	1
57DAP/7DAP	0.77378	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26157	0.067
17DAP/reference	1.22879	0.162
27DAP/reference	1.24569	0.041
39DAP/reference	1.34969	0.096
41DAP/reference	1.24332	0.015
42DAP/reference	1.1696	0.174
43DAP/reference	0.96721	0.334
47DAP/reference	1.21782	0.149
52DAP/reference	1.28376	0.058
57DAP/reference	1.19772	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26104	0.206
17DAP/reference	1.25634	0.024
27DAP/reference	1.20555	0.109
39DAP/reference	1.20542	0.346
41DAP/reference	1.01833	1
42DAP/reference	1.05654	0.649
43DAP/reference	0.96654	0.516
47DAP/reference	1.51014	0.018
52DAP/reference	1.17607	0.156
57DAP/reference	0.95364	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12084	0.481
17DAP/reference	1.01405	0.898
27DAP/reference	0.81203	0.081
39DAP/reference	1.29809	0.009
41DAP/reference	1.11086	0.296
42DAP/reference	1.02043	0.961
43DAP/reference	1.01671	1
47DAP/reference	1.17876	0.171
52DAP/reference	1.07675	0.759
57DAP/reference	1.02936	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11628	0.966
26DAP/20DAP	1.49098	0.197
34DAP/26DAP	0.90998	0.735
51DAP/34DAP	0.81673	0.107
52DAP/51DAP	0.8539	1
53DAP/52DAP	0.8331	0.21
55DAP/53DAP	0.55469	0.017
57DAP/55DAP	1.28069	0.461
62DAP/57DAP	1.07885	1
68DAP/62DAP	0.94508	0.81
68DAP/14DAP	1.00145	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.7179	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82721	0.279
Mature Green Tomato/Ripe Tomato	1.61873	0.024
Immature Eggplant/Mature Eggplant	0.87808	0.134
Ripe Pepper/Ripe Tomato	1.0213	1
Mature Eggplant/Ripe Tomato	0.72349	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84702	0.934
1-1-2/M82	1.15893	1
12-2/M82	0.78282	0.74
12-4/M82	0.84513	1
1-3/M82	2.32007	0.277
2-1-1/M82	0.96194	1
2-1/M82	0.66084	0.325
2-6/M82	0.93235	1
3-2/M82	1.0932	0.967
4-1-1/M82	1.06362	1
4-1/M82	1.05295	1
4-3-2/M82	1.52058	0.241
4-3/M82	1.27689	1
5-3/M82	1.23002	0.447
6-2/M82	0.88259	1
6-3/M82	0.97396	1
7-1/M82	1.09517	1
7-2/M82	1.26022	0.324
9-3-2/M82	1.0458	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22234
IL2-6/WTpooled	0.83659	1
IL7-5/WTpooled	0.8472
IL7-3/WTpooled	1.53114	0.362
IL12-4/WTpooled	1.09789	0.891
IL1-4/WTpooled	1.24812	1
WT/WTpooled	0.99958	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	0.98939	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85791	1
DC3000/delta hrp 6h	0.97558	0.95
DC3000/delta hrp 12h	0.90788	1
DC3000/delta hrp 24h	0.86754	0.194

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05599	0.515
DC3000 delta B/DC3000 delta AB	1.11012	0.477

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06771	1
Exp 36h	1.03518	1
Exp 60h	1.08976	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94672	1
Var 0h	0.42635	0.196
Var 12h I row2-row1	0.92066	0.705
Var 12h NI row2-row1	0.9676	0.906
Var 36h I row2-row1	1.1015	1
Var 36h NI row2-row1	0.93017	0.743
Var 60h I row2-row1	1.02445	1
Var 60h NI row2-row1	0.81045	0.335
Time course 0hI-0hNI	0.99239	0.973
Time course 12hI-12hNI	1.08155	0.512
Time course 36hI-36hNI	1.28329	0.07
Time course 60hI-60hNI	1.3375	0.033

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)	0.9009	0.314
transgenic ySAMdc/azygous control (breaker)	1.11421	1
transgenic ySAMdc/azygous control (red)	1.2372	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0889	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75461	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83793	1
Manapal/WT (break)	1.03321	1
Manapal/WT (red)	1.72173	0.134