Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08801	0.997
27DAP/17DAP	1.16334	0.873
39DAP/27DAP	1.58481	0.228
41DAP/39DAP	0.96038	0.773
42DAP/41DAP	1.15926	0.929
43DAP/42DAP	0.73472	0.467
47DAP/43DAP	1.00158	0.851
52DAP/47DAP	1.02146	0.938
57DAP/52DAP	1.00885	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99172	0.693
17DAP/reference	0.92581	0.208
27DAP/reference	0.9403	0.369
39DAP/reference	0.94602	0.36
41DAP/reference	0.97094	0.434
42DAP/reference	0.99084	0.455
43DAP/reference	0.94532	0.36
47DAP/reference	1.06296	0.093
52DAP/reference	1.00452	0.768
57DAP/reference	0.99865	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91138	0.415
27DAP/17DAP	1.0032	1
39DAP/27DAP	0.86964	0.367
41DAP/39DAP	1.87925	0.063
42DAP/41DAP	0.851	0.158
43DAP/42DAP	0.81028	0.127
47DAP/43DAP	1.12084	0.69
52DAP/47DAP	0.92438	0.77
57DAP/52DAP	0.99475	0.75
57DAP/7DAP	1.03573	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85386	0.1
17DAP/reference	0.9739	0.447
27DAP/reference	0.85915	0.035
39DAP/reference	0.84785	0.056
41DAP/reference	0.82074	0.021
42DAP/reference	0.85829	0.073
43DAP/reference	0.97032	0.421
47DAP/reference	0.90913	0.293
52DAP/reference	0.88042	0.15
57DAP/reference	0.89801	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86049	0.19
17DAP/reference	1.13119	0.01
27DAP/reference	1.0577	0.682
39DAP/reference	1.04482	0.978
41DAP/reference	0.94758	0.315
42DAP/reference	1.03534	0.81
43DAP/reference	1.04619	0.929
47DAP/reference	1.00815	1
52DAP/reference	1.11355	0.124
57DAP/reference	1.08073	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01764	0.804
17DAP/reference	1.05265	0.833
27DAP/reference	0.92113	0.113
39DAP/reference	0.89597	0.069
41DAP/reference	0.81101	0.05
42DAP/reference	0.81493	0.071
43DAP/reference	0.81207	0.025
47DAP/reference	0.95264	0.409
52DAP/reference	0.78724	0.145
57DAP/reference	0.9795	0.583

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06008	1
26DAP/20DAP	0.92211	0.512
34DAP/26DAP	1.17551	1
51DAP/34DAP	0.94765	0.722
52DAP/51DAP	0.97511	1
53DAP/52DAP	0.82051	0.489
55DAP/53DAP	0.7204	0.082
57DAP/55DAP	1.2343	0.376
62DAP/57DAP	1.05883	1
68DAP/62DAP	0.97663	0.863
68DAP/14DAP	0.89998	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80295	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80595	0.261
Mature Green Tomato/Ripe Tomato	1.24132	0.523
Immature Eggplant/Mature Eggplant	1.38114	0.05
Ripe Pepper/Ripe Tomato	3.44874	0.236
Mature Eggplant/Ripe Tomato	1.68406	0.26

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	1.10153
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	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	N/A	N/A
IL2-6/WTpooled	1.04664	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01781	1
IL12-4/WTpooled	0.99743	1
IL1-4/WTpooled	0.95375
WT/WTpooled	1.10076	0.957

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	1.08215	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87986	0.664
DC3000/delta hrp 6h	1.14981	1
DC3000/delta hrp 12h	1.2239	1
DC3000/delta hrp 24h	0.8864	0.216

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31345	0.094
DC3000 delta B/DC3000 delta AB	1.2281	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97689	1
Exp 36h	1.28933	1
Exp 60h	1.49292	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9953	1
Var 0h	0.84015	0.305
Var 12h I row2-row1	0.87924	0.705
Var 12h NI row2-row1	1.35818	0.649
Var 36h I row2-row1	1.10088	1
Var 36h NI row2-row1	0.75343	0.549
Var 60h I row2-row1	0.82664	0.582
Var 60h NI row2-row1	0.80154	0.516
Time course 0hI-0hNI	1.12977	0.413
Time course 12hI-12hNI	1.157	0.335
Time course 36hI-36hNI	2.10883	0.005
Time course 60hI-60hNI	2.75592	0.008

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)	1.13707	0.277
transgenic ySAMdc/azygous control (breaker)	0.85156	0.173
transgenic ySAMdc/azygous control (red)	0.99207	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04453	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71091	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98306	1
Manapal/WT (break)	0.91039	0.333
Manapal/WT (red)	1.01579	1