Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06828	0.947
27DAP/17DAP	0.79923	0.433
39DAP/27DAP	0.91368	0.594
41DAP/39DAP	0.95983	0.824
42DAP/41DAP	1.19642	0.825
43DAP/42DAP	1.25426	0.507
47DAP/43DAP	0.84175	0.51
52DAP/47DAP	1.27017	0.798
57DAP/52DAP	1.01205	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90711	0.589
17DAP/reference	0.85867	0.24
27DAP/reference	0.8738	0.286
39DAP/reference	1.0063	1
41DAP/reference	0.96371	0.667
42DAP/reference	1.02222	0.812
43DAP/reference	1.23825	0.024
47DAP/reference	1.28104	0.01
52DAP/reference	1.51188	0.035
57DAP/reference	1.33217	0.05

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09191	0.305
27DAP/17DAP	0.93474	0.446
39DAP/27DAP	1.00782	0.845
41DAP/39DAP	1.00577	1
42DAP/41DAP	0.98074	0.781
43DAP/42DAP	1.03626	0.554
47DAP/43DAP	1.02646	0.884
52DAP/47DAP	0.9831	0.917
57DAP/52DAP	0.9637	0.581
57DAP/7DAP	1.04957	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87143	0.095
17DAP/reference	0.96196	0.389
27DAP/reference	0.9218	0.171
39DAP/reference	0.86993	0.109
41DAP/reference	0.86203	0.213
42DAP/reference	1.208	0.889
43DAP/reference	0.84931	0.029
47DAP/reference	1.20132	0.404
52DAP/reference	0.80857	0.043
57DAP/reference	1.02909	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04156	0.823
17DAP/reference	1.03627	0.859
27DAP/reference	0.95979	0.483
39DAP/reference	1.00241	0.769
41DAP/reference	0.89776	0.173
42DAP/reference	1.26101	0.14
43DAP/reference	1.08577	0.745
47DAP/reference	1.04516	0.731
52DAP/reference	1.09424	0.444
57DAP/reference	0.94739	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89403	0.147
17DAP/reference	1.11134	0.898
27DAP/reference	0.78687	0.049
39DAP/reference	0.88555	0.035
41DAP/reference	0.84168	0.132
42DAP/reference	0.84927	0.172
43DAP/reference	1.00157	0.796
47DAP/reference	1.05311	0.847
52DAP/reference	1.17723	0.228
57DAP/reference	1.08907	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28812	0.966
26DAP/20DAP	0.94379	1
34DAP/26DAP	1.03085	1
51DAP/34DAP	0.90425	0.532
52DAP/51DAP	1.09434	0.358
53DAP/52DAP	0.99672	1
55DAP/53DAP	1.02288	0.976
57DAP/55DAP	1.05628	0.793
62DAP/57DAP	1.48773	0.004
68DAP/62DAP	1.32724	0.767
68DAP/14DAP	1.43203	0.189

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85068	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81057	0.318
Mature Green Tomato/Ripe Tomato	0.78544	0.148
Immature Eggplant/Mature Eggplant	1.31385	0.136
Ripe Pepper/Ripe Tomato	0.36577	0.224
Mature Eggplant/Ripe Tomato	0.58041	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88932	0.907
1-1-2/M82	1.05206	1
12-2/M82	0.80374
12-4/M82	0.95384	1
1-3/M82	1.135	1
2-1-1/M82	N/A	N/A
2-1/M82	1.0434
2-6/M82	1.00823	1
3-2/M82	1.2368	0.439
4-1-1/M82	1.1138	1
4-1/M82	1.26567	1
4-3-2/M82	0.96503
4-3/M82	1.13459	1
5-3/M82	1.04995	0.572
6-2/M82	1.00907
6-3/M82	1.05967	1
7-1/M82	0.96635	1
7-2/M82	1.1084	0.299
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7594	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.82228
IL1-4/WTpooled	1.37364	1
WT/WTpooled	2.31731

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	0.97694	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97917	1
DC3000/delta hrp 6h	0.75935	0.915
DC3000/delta hrp 12h	1.03625	1
DC3000/delta hrp 24h	1.22379	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.67197	0.05
DC3000 delta B/DC3000 delta AB	0.4641	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.96039	0.943
Exp 60h	1.01685	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00256	1
Var 0h	0.90277	1
Var 12h I row2-row1	0.89507	0.565
Var 12h NI row2-row1	0.95611	0.82
Var 36h I row2-row1	0.8441	0.575
Var 36h NI row2-row1	1.07843	1
Var 60h I row2-row1	1.18574	0.543
Var 60h NI row2-row1	1.04825	0.904
Time course 0hI-0hNI	1.04626	0.413
Time course 12hI-12hNI	1.04924	0.678
Time course 36hI-36hNI	0.92773	0.132
Time course 60hI-60hNI	0.1706	0.005

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)	1.02002	0.798
transgenic ySAMdc/azygous control (breaker)	0.83696	0.173
transgenic ySAMdc/azygous control (red)	0.98736	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00174	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81045	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99852	1
Manapal/WT (break)	0.85472	0.333
Manapal/WT (red)	1.37042	0.413