Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75766	0.2
27DAP/17DAP	0.8834	0.766
39DAP/27DAP	0.68852	0.241
41DAP/39DAP	0.84061	0.475
42DAP/41DAP	0.90461	1
43DAP/42DAP	1.15239	0.923
47DAP/43DAP	1.32046	0.647
52DAP/47DAP	1.01464	0.984
57DAP/52DAP	1.25148	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88606	0.217
17DAP/reference	0.90332	0.147
27DAP/reference	0.94893	0.497
39DAP/reference	0.89052	0.174
41DAP/reference	0.99021	0.814
42DAP/reference	1.14244	0.241
43DAP/reference	1.11922	0.705
47DAP/reference	0.97537	0.418
52DAP/reference	0.95631	0.382
57DAP/reference	0.99169	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83611	0.17
27DAP/17DAP	0.93945	0.854
39DAP/27DAP	0.85285	0.405
41DAP/39DAP	1.00385	1
42DAP/41DAP	0.92957	0.654
43DAP/42DAP	0.9795	0.801
47DAP/43DAP	0.88209	0.696
52DAP/47DAP	0.95437	0.876
57DAP/52DAP	0.9731	0.782
57DAP/7DAP	0.4654	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84346	0.059
17DAP/reference	0.9243	0.253
27DAP/reference	0.76655	0.039
39DAP/reference	0.93795	0.354
41DAP/reference	0.80218	0.082
42DAP/reference	0.79325	0.111
43DAP/reference	0.74115	0.061
47DAP/reference	0.75006	0.036
52DAP/reference	0.79251	0.04
57DAP/reference	0.72707	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33724	0.438
17DAP/reference	1.14723	0.415
27DAP/reference	1.06462	0.847
39DAP/reference	1.28415	0.377
41DAP/reference	1.18085	0.183
42DAP/reference	1.08324	0.73
43DAP/reference	1.21615	0.503
47DAP/reference	0.86407	0.087
52DAP/reference	1.00425	0.666
57DAP/reference	1.11196	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00249	0.699
17DAP/reference	0.9986	0.792
27DAP/reference	0.91032	0.067
39DAP/reference	0.75985	0.058
41DAP/reference	0.89192	0.132
42DAP/reference	1.14177	0.635
43DAP/reference	0.85059	0.216
47DAP/reference	1.03919	1
52DAP/reference	1.37759	0.837
57DAP/reference	0.93887	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9244	1
26DAP/20DAP	0.74077	0.512
34DAP/26DAP	0.83092	0.117
51DAP/34DAP	0.95055	0.747
52DAP/51DAP	1.31024	0.492
53DAP/52DAP	0.87612	0.776
55DAP/53DAP	1.18703	1
57DAP/55DAP	0.97925	0.914
62DAP/57DAP	1.09115	0.935
68DAP/62DAP	0.57277
68DAP/14DAP	1.05213	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76035	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.20435	0.058
Mature Green Tomato/Ripe Tomato	3.80888	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.63637

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	1.14848
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	1.07402
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	33.7565	0.328
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.9269
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	1.45999	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.7561
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.00769
IL1-4/WTpooled	0.61562	0.699
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	0.87379	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11395	0.921
DC3000/delta hrp 6h	1.27161	0.857
DC3000/delta hrp 12h	0.863	1
DC3000/delta hrp 24h	2.14856	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.70758	0.024
DC3000 delta B/DC3000 delta AB	0.59637	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.71327	1
Exp 36h	0.99153	0.943
Exp 60h	0.56645	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.996	1
Var 0h	0.79963	0.244
Var 12h I row2-row1	0.93222	0.856
Var 12h NI row2-row1	1.18661	0.649
Var 36h I row2-row1	1.17474	0.41
Var 36h NI row2-row1	1.23457	0.482
Var 60h I row2-row1	1.8824	0.562
Var 60h NI row2-row1	0.92935	1
Time course 0hI-0hNI	1.11015	0.764
Time course 12hI-12hNI	0.88881	0.436
Time course 36hI-36hNI	0.80443	0.043
Time course 60hI-60hNI	0.11095	0.005

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)	1.32946	0.541
transgenic ySAMdc/azygous control (breaker)	0.89951	0.49
transgenic ySAMdc/azygous control (red)	0.90761	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8752	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.3269	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12692	1
Manapal/WT (break)	1.20944	1
Manapal/WT (red)	1.22045	1