Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.8.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06278	0.851
27DAP/17DAP	1.24196	0.833
39DAP/27DAP	0.93135	0.641
41DAP/39DAP	0.81586	0.303
42DAP/41DAP	1.07894	0.994
43DAP/42DAP	0.99195	0.934
47DAP/43DAP	1.07565	0.513
52DAP/47DAP	1.12551	0.791
57DAP/52DAP	1.00725	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01251	1
17DAP/reference	1.02338	0.787
27DAP/reference	0.99337	0.779
39DAP/reference	1.09036	0.413
41DAP/reference	1.05883	0.421
42DAP/reference	0.92317	0.081
43DAP/reference	1.03915	0.787
47DAP/reference	1.0884	0.34
52DAP/reference	0.97929	0.489
57DAP/reference	1.18795	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15174	0.356
27DAP/17DAP	0.9839	0.919
39DAP/27DAP	0.99874	1
41DAP/39DAP	0.96251	0.945
42DAP/41DAP	1.1234	0.852
43DAP/42DAP	0.94901	0.503
47DAP/43DAP	0.94646	0.787
52DAP/47DAP	1.04663	0.986
57DAP/52DAP	1.22324	0.686
57DAP/7DAP	0.97238

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82008	0.067
17DAP/reference	0.9744	0.389
27DAP/reference	0.99691	0.698
39DAP/reference	0.94888	0.307
41DAP/reference	1.02289	1
42DAP/reference	0.92269	0.151
43DAP/reference	0.81815	0.066
47DAP/reference	0.95157	0.504
52DAP/reference	0.67657	0.015
57DAP/reference	0.76056	0.021

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08669	0.62
17DAP/reference	1.01668	0.904
27DAP/reference	0.97508	0.519
39DAP/reference	1.14174	0.124
41DAP/reference	1.0014	0.666
42DAP/reference	1.0115	1
43DAP/reference	1.49429	0.015
47DAP/reference	1.22789	0.069
52DAP/reference	1.08526	0.322
57DAP/reference	1.0523	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98493	0.653
17DAP/reference	0.98822	0.739
27DAP/reference	0.9561	0.416
39DAP/reference	0.88788	0.05
41DAP/reference	1.04678	0.867
42DAP/reference	1.0441	0.836
43DAP/reference	1.0328	0.993
47DAP/reference	1.04092	1
52DAP/reference	1.03895	0.862
57DAP/reference	1.40034	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09184	0.966
26DAP/20DAP	0.88751	0.512
34DAP/26DAP	0.97838	0.988
51DAP/34DAP	1.11811	0.829
52DAP/51DAP	0.92569	1
53DAP/52DAP	1.24527	0.723
55DAP/53DAP	0.98241	0.82
57DAP/55DAP	1.16984	0.997
62DAP/57DAP	0.95541	0.994
68DAP/62DAP	1.1263	0.897
68DAP/14DAP	1.42107	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83121	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.70056
Mature Green Tomato/Ripe Tomato	1.19213	1
Immature Eggplant/Mature Eggplant	1.62175
Ripe Pepper/Ripe Tomato	0.47727	0.224
Mature Eggplant/Ripe Tomato	0.64978	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02528	1
1-1-2/M82	0.89437	0.958
12-2/M82	1.23318	0.306
12-4/M82	1.07031	1
1-3/M82	0.78594	0.501
2-1-1/M82	1.28694
2-1/M82	N/A	N/A
2-6/M82	1.18528	0.505
3-2/M82	1.10811	0.967
4-1-1/M82	1.11029	1
4-1/M82	1.07421	1
4-3-2/M82	N/A	N/A
4-3/M82	0.99396	1
5-3/M82	0.93932	0.642
6-2/M82	0.90941	1
6-3/M82	1.13208	1
7-1/M82	N/A	N/A
7-2/M82	0.8142
9-3-2/M82	1.0635	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05615	1
IL2-6/WTpooled	1.01123	1
IL7-5/WTpooled	1.07334
IL7-3/WTpooled	0.99896	1
IL12-4/WTpooled	0.81781	0.581
IL1-4/WTpooled	1.14677	1
WT/WTpooled	0.74962	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	0.92056	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07872	0.758
DC3000/delta hrp 6h	0.96284	0.95
DC3000/delta hrp 12h	1.07783	1
DC3000/delta hrp 24h	1.03567	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.37953	0.27
DC3000 delta B/DC3000 delta AB	0.68578

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80189	0.213
Exp 36h	0.9179	0.749
Exp 60h	0.77212	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07345	1
Var 0h	1.05553	0.98
Var 12h I row2-row1	0.99477	1
Var 12h NI row2-row1	0.74292	0.494
Var 36h I row2-row1	0.74623	1
Var 36h NI row2-row1	1.05604	1
Var 60h I row2-row1	0.7387	0.308
Var 60h NI row2-row1	1.10222	0.904
Time course 0hI-0hNI	1.01989	0.852
Time course 12hI-12hNI	0.91444	0.698
Time course 36hI-36hNI	0.80932	0.032
Time course 60hI-60hNI	0.77337	0.026

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)	1.0187	0.748
transgenic ySAMdc/azygous control (breaker)	1.08066	1
transgenic ySAMdc/azygous control (red)	1.02852	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99619	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25422	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21784	0.307
Manapal/WT (break)	1.191	0.183
Manapal/WT (red)	1.42579	0.142