Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01571	0.951
27DAP/17DAP	1.05845	0.881
39DAP/27DAP	1.2218	0.603
41DAP/39DAP	1.02819	0.967
42DAP/41DAP	1.57877	0.681
43DAP/42DAP	0.83135	0.454
47DAP/43DAP	1.09317	0.999
52DAP/47DAP	0.90213	0.634
57DAP/52DAP	1.15388	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33899	0.121
17DAP/reference	1.44987	0.014
27DAP/reference	1.22463	0.03
39DAP/reference	1.23175	0.076
41DAP/reference	1.55811	0.079
42DAP/reference	1.20298	0.041
43DAP/reference	0.91248	0.273
47DAP/reference	0.70604	0.001
52DAP/reference	0.69193	0.02
57DAP/reference	0.76693	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02263	1
27DAP/17DAP	0.98918	0.919
39DAP/27DAP	1.17342	0.27
41DAP/39DAP	1.19719	0.799
42DAP/41DAP	1.05032	0.824
43DAP/42DAP	1.1327	0.351
47DAP/43DAP	1.06464	0.817
52DAP/47DAP	1.17796	0.474
57DAP/52DAP	1.16877	0.584
57DAP/7DAP	1.23197	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9866	0.613
17DAP/reference	0.87423	0.094
27DAP/reference	0.86822	0.082
39DAP/reference	1.0667	0.705
41DAP/reference	1.06443	0.767
42DAP/reference	1.05031	0.686
43DAP/reference	0.90717	0.202
47DAP/reference	1.41485	0.056
52DAP/reference	0.99593	0.679
57DAP/reference	1.13625	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07437	0.507
17DAP/reference	2.01633	0.008
27DAP/reference	1.95706	0.012
39DAP/reference	1.55673	0.017
41DAP/reference	1.12169	0.642
42DAP/reference	1.60663	0.009
43DAP/reference	1.30202	0.673
47DAP/reference	1.86568	0.009
52DAP/reference	1.31591	0.012
57DAP/reference	2.07453	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92505	0.158
17DAP/reference	1.39539	0.088
27DAP/reference	0.79317	0.14
39DAP/reference	1.17457	0.081
41DAP/reference	1.04074	0.826
42DAP/reference	0.92669	0.445
43DAP/reference	1.2601	0.28
47DAP/reference	0.69382	0.009
52DAP/reference	0.93326	0.493
57DAP/reference	1.15029	0.954

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14678	1
26DAP/20DAP	0.90004	0.512
34DAP/26DAP	1.33124	1
51DAP/34DAP	1.03019	0.96
52DAP/51DAP	1.06227	0.86
53DAP/52DAP	1.10772	0.343
55DAP/53DAP	1.00149	0.908
57DAP/55DAP	1.11018	0.694
62DAP/57DAP	0.88107	0.016
68DAP/62DAP	0.9788	0.834
68DAP/14DAP	0.62669	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15084	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99878	0.71
Mature Green Tomato/Ripe Tomato	1.22463	0.209
Immature Eggplant/Mature Eggplant	2.18942	0.05
Ripe Pepper/Ripe Tomato	0.50192	0.224
Mature Eggplant/Ripe Tomato	0.86594	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09294
1-1-2/M82	0.60587
12-2/M82	N/A	N/A
12-4/M82	1.15475	1
1-3/M82	0.77777
2-1-1/M82	0.82343
2-1/M82	N/A	N/A
2-6/M82	0.80743
3-2/M82	N/A	N/A
4-1-1/M82	0.61166
4-1/M82	0.96901
4-3-2/M82	N/A	N/A
4-3/M82	0.78824	0.273
5-3/M82	0.88562	0.49
6-2/M82	N/A	N/A
6-3/M82	1.1817	1
7-1/M82	0.80378
7-2/M82	0.71578	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03113	1
IL2-6/WTpooled	1.47243	0.409
IL7-5/WTpooled	0.76726	1
IL7-3/WTpooled	0.79754	0.418
IL12-4/WTpooled	1.084	1
IL1-4/WTpooled	0.7618	0.402
WT/WTpooled	1.10639	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	0.98404	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04011	0.823
DC3000/delta hrp 6h	1.06221	0.857
DC3000/delta hrp 12h	1.00843	1
DC3000/delta hrp 24h	1.07692	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	4.78685	0.25
DC3000 delta B/DC3000 delta AB	0.94329	0.497

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05691	1
Exp 36h	1.42098	1
Exp 60h	1.3281	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	1.14677
Var 12h NI row2-row1	0.9035	0.713
Var 36h I row2-row1	0.99359
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.93738
Var 60h NI row2-row1	1.04409	0.904
Time course 0hI-0hNI	1.07923	0.764
Time course 12hI-12hNI	1.05081	0.811
Time course 36hI-36hNI	0.85333	0.023
Time course 60hI-60hNI	1.18396	0.575

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)	1.18866	0.294
transgenic ySAMdc/azygous control (breaker)	0.72768	0.173
transgenic ySAMdc/azygous control (red)	0.84912	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00656	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10393	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35065	0.105
Manapal/WT (break)	1.13823	1
Manapal/WT (red)	0.89183	0.36