Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22862	0.709
27DAP/17DAP	0.84533	0.571
39DAP/27DAP	0.87599	0.482
41DAP/39DAP	1.34271	0.758
42DAP/41DAP	0.76331	0.259
43DAP/42DAP	0.82418	0.705
47DAP/43DAP	0.93729	0.701
52DAP/47DAP	1.22346	0.63
57DAP/52DAP	0.60131	0.7

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91032	0.269
17DAP/reference	1.03878	0.565
27DAP/reference	1.03033	0.672
39DAP/reference	1.05926	0.722
41DAP/reference	1.0501	0.451
42DAP/reference	0.9504	0.182
43DAP/reference	1.09471	0.403
47DAP/reference	1.01097	0.764
52DAP/reference	1.06376	0.8
57DAP/reference	1.14367	0.041

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91605	0.47
27DAP/17DAP	0.98356	0.919
39DAP/27DAP	0.90282	0.444
41DAP/39DAP	0.95859	0.934
42DAP/41DAP	1.05546	1
43DAP/42DAP	0.83657	0.085
47DAP/43DAP	1.06916	0.906
52DAP/47DAP	1.03157	0.945
57DAP/52DAP	0.94397	0.617
57DAP/7DAP	0.92996	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09042	0.564
17DAP/reference	0.93797	0.389
27DAP/reference	0.76509	0.048
39DAP/reference	0.84123	0.073
41DAP/reference	0.92319	0.166
42DAP/reference	1.03529	1
43DAP/reference	0.82561	0.121
47DAP/reference	1.03792	1
52DAP/reference	1.00706	0.679
57DAP/reference	1.12437	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01104	0.952
17DAP/reference	0.96052	0.523
27DAP/reference	0.97524	0.519
39DAP/reference	0.99919	0.621
41DAP/reference	1.14215	0.327
42DAP/reference	1.22768	0.332
43DAP/reference	1.13586	0.688
47DAP/reference	0.94454	0.246
52DAP/reference	1.00033	0.761
57DAP/reference	1.14842	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21152	0.218
17DAP/reference	1.18736	0.228
27DAP/reference	1.1168
39DAP/reference	1.04165	0.512
41DAP/reference	0.93753	0.459
42DAP/reference	0.92196	0.361
43DAP/reference	0.77914	0.021
47DAP/reference	0.90945	0.296
52DAP/reference	0.87452	0.455
57DAP/reference	0.97632	0.543

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0608	0.966
26DAP/20DAP	0.75167	0.512
34DAP/26DAP	1.11263	1
51DAP/34DAP	0.65129	0.436
52DAP/51DAP	4.23292	0.662
53DAP/52DAP	0.80277	0.231
55DAP/53DAP	1.46111	0.184
57DAP/55DAP	0.90307	0.638
62DAP/57DAP	0.88944
68DAP/62DAP	1.06051
68DAP/14DAP	0.62687

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69472	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.42397	0.399
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.39673	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10557	1
1-1-2/M82	0.93941	1
12-2/M82	1.04342
12-4/M82	0.95401	1
1-3/M82	1.00769	1
2-1-1/M82	0.99788
2-1/M82	N/A	N/A
2-6/M82	0.99776	1
3-2/M82	0.82316
4-1-1/M82	0.95199	1
4-1/M82	1.14215
4-3-2/M82	0.78216	0.698
4-3/M82	0.69838	0.611
5-3/M82	0.94105	0.49
6-2/M82	0.86673	1
6-3/M82	0.9833	1
7-1/M82	0.96194
7-2/M82	0.95077	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98015
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.28556	1
WT/WTpooled	1.07117	0.957

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	0.98953	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03289	0.921
DC3000/delta hrp 6h	2.72659	0.329
DC3000/delta hrp 12h	0.88504	1
DC3000/delta hrp 24h	0.93912	0.483

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95097	0.328
Exp 36h	1.10878	1
Exp 60h	1.25481	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02868	1
Var 0h	0.86716	0.457
Var 12h I row2-row1	0.9178	0.705
Var 12h NI row2-row1	0.70919	0.488
Var 36h I row2-row1	0.69268	0.805
Var 36h NI row2-row1	1.09036	0.852
Var 60h I row2-row1	1.93014	1
Var 60h NI row2-row1	1.61376	0.904
Time course 0hI-0hNI	1.02318	1
Time course 12hI-12hNI	1.04542	0.868
Time course 36hI-36hNI	0.89625	0.153
Time course 60hI-60hNI	0.95337	0.319

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)	1.04119	0.431
transgenic ySAMdc/azygous control (breaker)	0.97816	1
transgenic ySAMdc/azygous control (red)	0.89537	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93132	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78523	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77859	1
Manapal/WT (break)	0.90475	0.333
Manapal/WT (red)	1.06221	1