Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77212	0.075
27DAP/17DAP	1.24633	0.766
39DAP/27DAP	1.69824	0.128
41DAP/39DAP	1.13735	0.696
42DAP/41DAP	1.81523	0.199
43DAP/42DAP	1.11692	1
47DAP/43DAP	1.63202	0.288
52DAP/47DAP	0.80783	0.521
57DAP/52DAP	1.54278	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02491	0.63
17DAP/reference	0.7442	0.008
27DAP/reference	1.08763	0.82
39DAP/reference	0.84564	0.049
41DAP/reference	0.78676	0.009
42DAP/reference	1.12543	0.812
43DAP/reference	1.01987	0.899
47DAP/reference	1.4325	0.114
52DAP/reference	1.84907	0.022
57DAP/reference	1.74635	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79699	0.08
27DAP/17DAP	0.95101	0.854
39DAP/27DAP	1.32054	0.08
41DAP/39DAP	0.72096	0.142
42DAP/41DAP	1.41635	0.075
43DAP/42DAP	2.52034	0.013
47DAP/43DAP	0.93006	0.757
52DAP/47DAP	0.83061	0.413
57DAP/52DAP	0.58601	0.052
57DAP/7DAP	0.68826	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97888	0.55
17DAP/reference	0.86694	0.039
27DAP/reference	0.97822	0.43
39DAP/reference	1.58489	0.006
41DAP/reference	1.04805	0.507
42DAP/reference	1.44787	0.024
43DAP/reference	1.45918	0.018
47DAP/reference	1.55408	0.016
52DAP/reference	1.46766	0.017
57DAP/reference	1.17859	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64758	0.029
17DAP/reference	0.84983	0.109
27DAP/reference	1.12432	0.682
39DAP/reference	1.19905	0.22
41DAP/reference	1.53986	0.006
42DAP/reference	1.05388	0.723
43DAP/reference	0.71972	0.058
47DAP/reference	0.90952	0.154
52DAP/reference	1.20578	0.145
57DAP/reference	0.92206	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04125	0.804
17DAP/reference	0.91448	0.47
27DAP/reference	1.14261	0.216
39DAP/reference	1.15371	0.218
41DAP/reference	1.26339	0.016
42DAP/reference	1.47644	0.121
43DAP/reference	1.5318	0.057
47DAP/reference	1.47526	0.355
52DAP/reference	0.98697	0.763
57DAP/reference	2.33081	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19298	0.966
26DAP/20DAP	1.74471	0.103
34DAP/26DAP	0.99178	1
51DAP/34DAP	1.5366	0.719
52DAP/51DAP	0.9372	1
53DAP/52DAP	1.04974	0.767
55DAP/53DAP	1.38895
57DAP/55DAP	1.24488	0.492
62DAP/57DAP	0.86723	0.681
68DAP/62DAP	4.66048	0.025
68DAP/14DAP	3.91177	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.41786	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.38164	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.06243
Mature Eggplant/Ripe Tomato	0.08305	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.77682	0.742
1-1-2/M82	1.20079	1
12-2/M82	1.37379	0.519
12-4/M82	1.02619	1
1-3/M82	1.4431	0.26
2-1-1/M82	1.02449	1
2-1/M82	0.88104	0.74
2-6/M82	0.90655	1
3-2/M82	0.31955	0.455
4-1-1/M82	1.43576	1
4-1/M82	1.27264	1
4-3-2/M82	1.08195	1
4-3/M82	1.11402	1
5-3/M82	1.12595	1
6-2/M82	1.20656	1
6-3/M82	0.88846	1
7-1/M82	1.0561	0.598
7-2/M82	0.98049
9-3-2/M82	1.14344	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07549	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.14392	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.20044	1
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	1.10626	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01483	1
DC3000/delta hrp 6h	0.72882
DC3000/delta hrp 12h	0.65986
DC3000/delta hrp 24h	1.04579	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.55479	0.11
DC3000 delta B/DC3000 delta AB	1.33988	0.192

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	0.99555	1
Var 0h	1.73493	0.594
Var 12h I row2-row1	0.88496	0.338
Var 12h NI row2-row1	1.17602	1
Var 36h I row2-row1	1.19132	0.309
Var 36h NI row2-row1	1.00603	1
Var 60h I row2-row1	0.76744	0.306
Var 60h NI row2-row1	0.92669	0.866
Time course 0hI-0hNI	1.08028	0.574
Time course 12hI-12hNI	0.9129	0.398
Time course 36hI-36hNI	1.08909	0.58
Time course 60hI-60hNI	1.27141	0.022

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25676	1

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)	0.90981	1
Manapal/WT (red)	1.28834	0.222