Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13556	0.452
27DAP/17DAP	1.08018	0.88
39DAP/27DAP	0.99184	0.782
41DAP/39DAP	1.05347	0.742
42DAP/41DAP	1.03536	0.997
43DAP/42DAP	1.14469	0.875
47DAP/43DAP	1.3462	0.463
52DAP/47DAP	0.94943	0.74
57DAP/52DAP	1.06475	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95722	0.39
17DAP/reference	0.99974	1
27DAP/reference	1.01492	0.771
39DAP/reference	1.03903	0.256
41DAP/reference	1.06548	0.062
42DAP/reference	1.02444	0.485
43DAP/reference	0.96792	0.594
47DAP/reference	1.06023	0.161
52DAP/reference	1.01532	1
57DAP/reference	1.12304	0.173

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01421	0.841
27DAP/17DAP	0.98389	0.821
39DAP/27DAP	0.9875	0.881
41DAP/39DAP	1.02272	0.827
42DAP/41DAP	0.99686	0.913
43DAP/42DAP	0.99457	0.991
47DAP/43DAP	1.00085	0.973
52DAP/47DAP	0.98747	0.907
57DAP/52DAP	0.98148	0.637
57DAP/7DAP	0.94843	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91365	0.104
17DAP/reference	0.89773	0.108
27DAP/reference	0.86509	0.022
39DAP/reference	0.9354	0.064
41DAP/reference	0.96163	0.098
42DAP/reference	0.90797	0.055
43DAP/reference	0.88686	0.022
47DAP/reference	0.93531	0.128
52DAP/reference	0.80856	0.035
57DAP/reference	0.91637	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97124	0.441
17DAP/reference	1.04959	0.437
27DAP/reference	0.94819	0.317
39DAP/reference	0.98003	0.497
41DAP/reference	1.04281	0.944
42DAP/reference	1.08583	0.466
43DAP/reference	0.96105	0.468
47DAP/reference	1.11643	0.063
52DAP/reference	0.98147	0.433
57DAP/reference	0.99427	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93136	0.249
17DAP/reference	0.9953	0.81
27DAP/reference	0.91211	0.206
39DAP/reference	0.88967	0.076
41DAP/reference	0.93515	0.148
42DAP/reference	0.79967	0.016
43DAP/reference	0.91269	0.088
47DAP/reference	1.05217	0.251
52DAP/reference	0.79283	0.163
57DAP/reference	0.94295	0.242

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99617	1
26DAP/20DAP	1.0137	1
34DAP/26DAP	0.99301	1
51DAP/34DAP	1.01174	0.909
52DAP/51DAP	0.95753	1
53DAP/52DAP	1.00746	1
55DAP/53DAP	0.96818	0.698
57DAP/55DAP	1.14092	0.902
62DAP/57DAP	0.94813	0.994
68DAP/62DAP	1.04019	0.991
68DAP/14DAP	1.09249	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96012	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92689
Mature Green Tomato/Ripe Tomato	1.09181	0.881
Immature Eggplant/Mature Eggplant	1.09275	0.683
Ripe Pepper/Ripe Tomato	1.79597	1
Mature Eggplant/Ripe Tomato	3.40334

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97161	0.944
1-1-2/M82	0.94752	1
12-2/M82	0.93032	0.955
12-4/M82	0.95451	1
1-3/M82	0.96595	0.501
2-1-1/M82	0.94102	1
2-1/M82	0.95445
2-6/M82	0.91777	1
3-2/M82	0.98445
4-1-1/M82	1.12031	0.968
4-1/M82	0.87268
4-3-2/M82	0.89405	1
4-3/M82	0.954	0.611
5-3/M82	1.0114	1
6-2/M82	1.00397	1
6-3/M82	1.02723	1
7-1/M82	1.02607	0.598
7-2/M82	0.97879	1
9-3-2/M82	1.00577	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08047	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.68116	0.298
IL12-4/WTpooled	1.03377	0.532
IL1-4/WTpooled	1.13803	1
WT/WTpooled	1.06188	0.89

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	1.12852	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05201	0.875
DC3000/delta hrp 6h	1.38317	1
DC3000/delta hrp 12h	1.05549	1
DC3000/delta hrp 24h	1.11448	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08876	0.313
DC3000 delta B/DC3000 delta AB	1.03302	0.614

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98428	1
Var 0h	1.13131	0.936
Var 12h I row2-row1	1.09915	0.22
Var 12h NI row2-row1	0.96102	0.627
Var 36h I row2-row1	1.11602	1
Var 36h NI row2-row1	0.96277	0.743
Var 60h I row2-row1	1.07409	1
Var 60h NI row2-row1	0.98293	1
Time course 0hI-0hNI	1.19733	0.799
Time course 12hI-12hNI	1.02508	0.788
Time course 36hI-36hNI	1.02942	0.799
Time course 60hI-60hNI	1.04841	0.302

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)	0.89781	0.529
transgenic ySAMdc/azygous control (breaker)	1.42309	1
transgenic ySAMdc/azygous control (red)	1.33905	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99833	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27993	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10246	1
Manapal/WT (break)	0.66009	0.333
Manapal/WT (red)	0.74995	0.315