Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.19.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61169	0.159
27DAP/17DAP	1.42998	0.613
39DAP/27DAP	0.94649	0.682
41DAP/39DAP	0.93874	0.717
42DAP/41DAP	1.01734	1
43DAP/42DAP	0.89639	0.858
47DAP/43DAP	0.90112	0.663
52DAP/47DAP	1.07384	0.973
57DAP/52DAP	1.26103	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11612	0.638
17DAP/reference	1.0686	0.653
27DAP/reference	1.32372	0.032
39DAP/reference	1.11225	0.27
41DAP/reference	1.05313	0.516
42DAP/reference	1.39056	0.002
43DAP/reference	1.29713	0.01
47DAP/reference	1.44549	0.046
52DAP/reference	2.03207	0.009
57DAP/reference	1.76264	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21514	0.525
27DAP/17DAP	0.92475	0.648
39DAP/27DAP	1.13233	0.347
41DAP/39DAP	1.08616	0.807
42DAP/41DAP	1.11718	0.478
43DAP/42DAP	1.36485	0.031
47DAP/43DAP	0.99871	0.99
52DAP/47DAP	1.21052	0.492
57DAP/52DAP	1.89678	0.029
57DAP/7DAP	2.05372	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9171	0.246
17DAP/reference	0.9477	0.338
27DAP/reference	0.94146	0.303
39DAP/reference	0.92004	0.307
41DAP/reference	1.01285	0.677
42DAP/reference	0.96005	0.393
43DAP/reference	0.9029	0.159
47DAP/reference	0.95208	0.504
52DAP/reference	0.75719	0.012
57DAP/reference	0.7849	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92119	0.399
17DAP/reference	0.99075	0.642
27DAP/reference	1.30017	0.156
39DAP/reference	1.48148	0.016
41DAP/reference	1.69239	0.037
42DAP/reference	1.509	0.016
43DAP/reference	1.03655	1
47DAP/reference	1.2697	0.013
52DAP/reference	1.5035	0.008
57DAP/reference	1.45606	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94585	0.362
17DAP/reference	0.9094	0.292
27DAP/reference	0.88208	0.089
39DAP/reference	0.97187	0.544
41DAP/reference	0.79682	0.064
42DAP/reference	0.88867	0.22
43DAP/reference	1.4591	0.114
47DAP/reference	1.3696	0.085
52DAP/reference	1.01998	0.904
57DAP/reference	1.56875	0.151

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29738	0.545
26DAP/20DAP	1.25417	0.219
34DAP/26DAP	1.1728	1
51DAP/34DAP	0.86639	0.442
52DAP/51DAP	1.28404	0.176
53DAP/52DAP	0.99869	1
55DAP/53DAP	1.13173	0.982
57DAP/55DAP	0.94204	0.718
62DAP/57DAP	1.14952	0.868
68DAP/62DAP	1.52414	0.042
68DAP/14DAP	1.18064	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09135	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.73229	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.14108	0.224
Mature Eggplant/Ripe Tomato	0.13496	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.39877	0.591
1-1-2/M82	1.21778
12-2/M82	0.48511	0.496
12-4/M82	1.52208	0.694
1-3/M82	N/A	N/A
2-1-1/M82	5.03726	0.332
2-1/M82	9.43824	0.188
2-6/M82	1.04312	1
3-2/M82	N/A	N/A
4-1-1/M82	1.24641	1
4-1/M82	0.79543	1
4-3-2/M82	1.19711	0.508
4-3/M82	1.45985	0.268
5-3/M82	1.24299	1
6-2/M82	3.87756	0.235
6-3/M82	1.09902	1
7-1/M82	0.78963	0.509
7-2/M82	0.54794	0.486
9-3-2/M82	1.03301

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.59662	0.243
IL2-6/WTpooled	0.91422	1
IL7-5/WTpooled	1.00278
IL7-3/WTpooled	1.02994	1
IL12-4/WTpooled	1.2901	0.646
IL1-4/WTpooled	0.96107	1
WT/WTpooled	0.94403	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	1.04119	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89983	0.664
DC3000/delta hrp 6h	1.09849
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.06297	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.04079	0.694

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	1.03197	1
Var 0h	1.11717	1
Var 12h I row2-row1	0.89924	0.418
Var 12h NI row2-row1	0.91206	0.82
Var 36h I row2-row1	1.1914	0.601
Var 36h NI row2-row1	0.86606	0.584
Var 60h I row2-row1	0.79602	0.374
Var 60h NI row2-row1	0.86334	0.977
Time course 0hI-0hNI	1.0113	1
Time course 12hI-12hNI	1.01494	0.818
Time course 36hI-36hNI	1.1774	0.248
Time course 60hI-60hNI	1.28052	0.012

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)	0.6191	0.289
transgenic ySAMdc/azygous control (breaker)	1.06181	1
transgenic ySAMdc/azygous control (red)	1.46295	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.84317	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71258	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12611	1
Manapal/WT (break)	1.67878	1
Manapal/WT (red)	0.35756	0.181