Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.11.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57272	0.062
27DAP/17DAP	0.70127	0.139
39DAP/27DAP	1.37707	0.391
41DAP/39DAP	1.02952	0.914
42DAP/41DAP	0.61976	0.397
43DAP/42DAP	0.76305	0.649
47DAP/43DAP	0.68143	0.183
52DAP/47DAP	0.86114	0.637
57DAP/52DAP	1.01991	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35246	0.014
17DAP/reference	1.16422	0.117
27DAP/reference	1.02673	0.709
39DAP/reference	1.02262	0.76
41DAP/reference	1.01033	1
42DAP/reference	1.07912	0.029
43DAP/reference	1.0137	0.838
47DAP/reference	0.9961	0.674
52DAP/reference	0.70359	0.055
57DAP/reference	0.82325	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89983	0.509
27DAP/17DAP	0.97323	0.878
39DAP/27DAP	1.20115	0.224
41DAP/39DAP	0.74377	0.236
42DAP/41DAP	1.64446	0.282
43DAP/42DAP	0.92035	0.597
47DAP/43DAP	0.9398	0.855
52DAP/47DAP	1.16887	0.645
57DAP/52DAP	0.84819	0.225
57DAP/7DAP	0.99855	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94323	0.168
17DAP/reference	0.94608	0.056
27DAP/reference	0.94701	0.058
39DAP/reference	0.97187	0.146
41DAP/reference	0.98928	0.565
42DAP/reference	1.04872	0.024
43DAP/reference	0.94428	0.076
47DAP/reference	1.07411	0.395
52DAP/reference	0.93641	0.097
57DAP/reference	0.93781	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33399	0.051
17DAP/reference	1.17045	0.081
27DAP/reference	0.95859	0.438
39DAP/reference	0.8706	0.117
41DAP/reference	0.96946	0.432
42DAP/reference	1.00927	0.655
43DAP/reference	1.04359	0.874
47DAP/reference	0.90068	0.066
52DAP/reference	0.94677	0.302
57DAP/reference	1.27791	0.06

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04036	0.984
17DAP/reference	1.07568	0.72
27DAP/reference	0.95166	0.174
39DAP/reference	0.86959	0.008
41DAP/reference	0.9718	0.264
42DAP/reference	0.81129	0.087
43DAP/reference	0.82164	0.246
47DAP/reference	0.91933	0.348
52DAP/reference	0.90194	0.268
57DAP/reference	0.52995	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.37179	0.752
26DAP/20DAP	0.76953	1
34DAP/26DAP	0.73425	0.084
51DAP/34DAP	1.26186	0.192
52DAP/51DAP	0.79418	1
53DAP/52DAP	1.25539	0.723
55DAP/53DAP	1.39555	0.608
57DAP/55DAP	1.13	0.915
62DAP/57DAP	1.11381	0.833
68DAP/62DAP	0.74921	0.245
68DAP/14DAP	1.62741	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06966	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	6.64993	N/A
Mature Green Tomato/Ripe Tomato	4.27319	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	6.7913	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.99187	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.90656	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	14.7136	0.277
IL2-6/WTpooled	0.64798	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.41023	1
IL12-4/WTpooled	2.39535	0.367
IL1-4/WTpooled	0.87168	N/A
WT/WTpooled	1.00593	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	2.03478	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.82388	0.868
DC3000/delta hrp 6h	1.2694	1
DC3000/delta hrp 12h	0.80875	1
DC3000/delta hrp 24h	9.77341	0.017

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	0.46749	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96754	1
Exp 36h	0.94116	0.879
Exp 60h	0.92545	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99757	1
Var 0h	0.93261	1
Var 12h I row2-row1	0.79269	0.705
Var 12h NI row2-row1	0.77962	0.546
Var 36h I row2-row1	0.93755	1
Var 36h NI row2-row1	1.6389	1
Var 60h I row2-row1	0.89452	0.952
Var 60h NI row2-row1	1.28445	1
Time course 0hI-0hNI	1.01282	1
Time course 12hI-12hNI	0.96274	0.782
Time course 36hI-36hNI	1.00862	0.693
Time course 60hI-60hNI	0.76182	0.081

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)	1.29128	0.654
transgenic ySAMdc/azygous control (breaker)	0.74746	0.142
transgenic ySAMdc/azygous control (red)	1.19481	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00147	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09665	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.44214	0.14
Manapal/WT (break)	1.3083	1
Manapal/WT (red)	0.90848	0.424