Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.11.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00069	0.961
27DAP/17DAP	1.02413	0.91
39DAP/27DAP	0.98521	0.749
41DAP/39DAP	1.23037	0.416
42DAP/41DAP	0.89055	1
43DAP/42DAP	0.92055	0.865
47DAP/43DAP	1.20401	0.538
52DAP/47DAP	1.2121	0.873
57DAP/52DAP	1.04723	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91985	0.075
17DAP/reference	0.95866	0.503
27DAP/reference	1.01758	0.863
39DAP/reference	1.03075	0.359
41DAP/reference	0.84948	0.114
42DAP/reference	0.90272	0.045
43DAP/reference	0.979	0.675
47DAP/reference	0.95939	0.242
52DAP/reference	0.86766	0.215
57DAP/reference	1.03615	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02728	0.728
27DAP/17DAP	1.0399	0.852
39DAP/27DAP	0.95876	0.607
41DAP/39DAP	0.95791	0.793
42DAP/41DAP	1.04516	0.861
43DAP/42DAP	1.01253	0.699
47DAP/43DAP	0.98366	0.909
52DAP/47DAP	1.01621	0.956
57DAP/52DAP	1.00019	0.926
57DAP/7DAP	1.03289	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04627	0.894
17DAP/reference	1.10316	0.092
27DAP/reference	0.91236	0.171
39DAP/reference	1.0305	1
41DAP/reference	0.91768	0.127
42DAP/reference	1.04293	0.534
43DAP/reference	1.10222	0.14
47DAP/reference	0.97632	0.671
52DAP/reference	0.99289	0.621
57DAP/reference	1.06621	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91171	0.222
17DAP/reference	0.93201	0.124
27DAP/reference	0.85962	0.144
39DAP/reference	0.96107	0.339
41DAP/reference	0.88047	0.061
42DAP/reference	0.9975	0.655
43DAP/reference	0.97458	0.62
47DAP/reference	1.05063	0.467
52DAP/reference	0.95466	0.239
57DAP/reference	0.99668	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92809	0.054
17DAP/reference	0.95773	0.426
27DAP/reference	0.99303	0.727
39DAP/reference	1.02152	0.935
41DAP/reference	1.00178	0.826
42DAP/reference	0.87364	0.02
43DAP/reference	0.83452	0.033
47DAP/reference	0.90482	0.231
52DAP/reference	0.9003	0.376
57DAP/reference	0.79206	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02253	0.966
26DAP/20DAP	0.99661	1
34DAP/26DAP	0.99445	1
51DAP/34DAP	1.00083	1
52DAP/51DAP	0.99711	1
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.14231
57DAP/55DAP	0.93199	0.748
62DAP/57DAP	0.99014	1
68DAP/62DAP	0.75441	0.118
68DAP/14DAP	1.51529	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98904	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15385	0.176
Mature Green Tomato/Ripe Tomato	0.99717	0.774
Immature Eggplant/Mature Eggplant	0.91252	0.545
Ripe Pepper/Ripe Tomato	4.62612	1
Mature Eggplant/Ripe Tomato	3.29129	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94211	0.944
1-1-2/M82	0.99049	1
12-2/M82	0.91342	0.955
12-4/M82	0.9503	1
1-3/M82	0.92647	0.441
2-1-1/M82	1.04773	0.764
2-1/M82	1.18658	1
2-6/M82	0.90107	1
3-2/M82	0.9438	0.455
4-1-1/M82	1.00747	1
4-1/M82	0.95714	1
4-3-2/M82	0.83847	0.698
4-3/M82	1.02819	1
5-3/M82	1.03938	1
6-2/M82	0.95295	1
6-3/M82	0.99301	1
7-1/M82	0.92812	0.803
7-2/M82	0.96629	1
9-3-2/M82	0.80427	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97849	1
IL2-6/WTpooled	0.93518	1
IL7-5/WTpooled	0.88809	1
IL7-3/WTpooled	0.83007	1
IL12-4/WTpooled	0.64967	0.478
IL1-4/WTpooled	0.87727	0.476
WT/WTpooled	1.14735	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	0.81535

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02203	0.914
DC3000/delta hrp 6h	1.69306	1
DC3000/delta hrp 12h	1.07415	1
DC3000/delta hrp 24h	0.89927	0.379

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20544	0.048
DC3000 delta B/DC3000 delta AB	1.16353	0.246

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	0.93959	1
Var 0h	1.14456	0.98
Var 12h I row2-row1	1.20667	0.193
Var 12h NI row2-row1	1.01098	1
Var 36h I row2-row1	0.97471	1
Var 36h NI row2-row1	0.86212	0.469
Var 60h I row2-row1	1.2002	1
Var 60h NI row2-row1	1.09061	0.904
Time course 0hI-0hNI	1.05181	0.867
Time course 12hI-12hNI	1.08442	0.668
Time course 36hI-36hNI	1.02473	0.799
Time course 60hI-60hNI	1.82434	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)	0.9141	0.309
transgenic ySAMdc/azygous control (breaker)	1.37456	0.248
transgenic ySAMdc/azygous control (red)	1.29261	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98707	0.22

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8751	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A