Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0045	0.911
27DAP/17DAP	0.68912	0.121
39DAP/27DAP	0.80834	0.364
41DAP/39DAP	1.06791	1
42DAP/41DAP	1.21667	0.832
43DAP/42DAP	1.21662	0.69
47DAP/43DAP	0.93382	0.729
52DAP/47DAP	1.00247	0.842
57DAP/52DAP	1.10338	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81143	0.075
17DAP/reference	0.75889	0.009
27DAP/reference	0.95853	0.471
39DAP/reference	0.72868	0.188
41DAP/reference	0.7342	0.009
42DAP/reference	0.88376	0.046
43DAP/reference	0.90229	0.143
47DAP/reference	0.99968	0.602
52DAP/reference	1.52102	0.069
57DAP/reference	1.52035	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94109	0.542
27DAP/17DAP	1.03133	0.938
39DAP/27DAP	1.02451	0.824
41DAP/39DAP	1.0595	1
42DAP/41DAP	1.03983	0.924
43DAP/42DAP	1.03843	0.746
47DAP/43DAP	1.0084	1
52DAP/47DAP	0.98573	0.917
57DAP/52DAP	0.96299	0.695
57DAP/7DAP	0.75219	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87422	0.062
17DAP/reference	0.86463	0.02
27DAP/reference	0.85454	0.013
39DAP/reference	0.85257	0.034
41DAP/reference	0.872	0.09
42DAP/reference	0.8644	0.082
43DAP/reference	0.80753	0.022
47DAP/reference	0.96611	0.671
52DAP/reference	0.92226	0.213
57DAP/reference	0.82522	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86725	0.1
17DAP/reference	0.73493	0.004
27DAP/reference	0.98874	0.619
39DAP/reference	0.94427	0.322
41DAP/reference	0.964	0.348
42DAP/reference	1.01329	1
43DAP/reference	0.83048	0.108
47DAP/reference	0.82788	0.018
52DAP/reference	0.92872	0.008
57DAP/reference	0.63567	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89578	0.135
17DAP/reference	0.92876	0.398
27DAP/reference	0.88509	0.147
39DAP/reference	0.83356	0.02
41DAP/reference	0.98151	0.618
42DAP/reference	1.23586	0.373
43DAP/reference	1.04042	0.894
47DAP/reference	0.99603	0.593
52DAP/reference	0.74004	0.072
57DAP/reference	2.04359	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94979	1
26DAP/20DAP	0.87678	0.512
34DAP/26DAP	0.98109	0.961
51DAP/34DAP	1.18307	0.511
52DAP/51DAP	1.27222	0.037
53DAP/52DAP	1.24538	0.444
55DAP/53DAP	1.07025	0.537
57DAP/55DAP	0.86883	0.633
62DAP/57DAP	0.98872	0.994
68DAP/62DAP	1.85389	0.367
68DAP/14DAP	2.30725	0.032

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84475	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.48376	0.085
Mature Green Tomato/Ripe Tomato	1.08308	0.752
Immature Eggplant/Mature Eggplant	0.97127	0.912
Ripe Pepper/Ripe Tomato	5.19195	0.258
Mature Eggplant/Ripe Tomato	1.18516	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09306	1
1-1-2/M82	1.11722	1
12-2/M82	1.2082	1
12-4/M82	0.98643	1
1-3/M82	0.97026	1
2-1-1/M82	0.83165	0.465
2-1/M82	0.67113	0.74
2-6/M82	0.98016	1
3-2/M82	1.10664
4-1-1/M82	0.90093	0.908
4-1/M82	1.08591
4-3-2/M82	0.8261	0.698
4-3/M82	0.86837	0.611
5-3/M82	0.96315	1
6-2/M82	0.8707	1
6-3/M82	0.98696	1
7-1/M82	0.77721
7-2/M82	0.98427	1
9-3-2/M82	1.0526

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69791	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.64168
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.81328	0.402
WT/WTpooled	N/A	N/A

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	0.78721	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99811	1
DC3000/delta hrp 6h	1.11804	1
DC3000/delta hrp 12h	1.02535	1
DC3000/delta hrp 24h	0.96682	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76702
DC3000 delta B/DC3000 delta AB	0.86122	0.142

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99731	1
Exp 36h	0.78837	0.406
Exp 60h	0.79845	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9576	1
Var 0h	0.88115	0.332
Var 12h I row2-row1	0.9585	0.77
Var 12h NI row2-row1	0.99903	1
Var 36h I row2-row1	1.05211	1
Var 36h NI row2-row1	0.97349	0.791
Var 60h I row2-row1	1.46874	0.562
Var 60h NI row2-row1	1.12601	0.904
Time course 0hI-0hNI	1.02405	0.63
Time course 12hI-12hNI	0.92635	0.259
Time course 36hI-36hNI	0.84889	0.029
Time course 60hI-60hNI	0.59624	0.047

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)	1.1333	0.339
transgenic ySAMdc/azygous control (breaker)	1.1341	0.178
transgenic ySAMdc/azygous control (red)	1.21634	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00364	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27004	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.71527	0.105
Manapal/WT (break)	2.43405	0.14
Manapal/WT (red)	1.48691	0.164