Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.10.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00941	0.891
27DAP/17DAP	0.96979	0.952
39DAP/27DAP	1.25548	0.476
41DAP/39DAP	0.91617	0.694
42DAP/41DAP	0.92963	1
43DAP/42DAP	1.01015	1
47DAP/43DAP	1.12309	0.965
52DAP/47DAP	1.20607	0.597
57DAP/52DAP	1.53561	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86768	0.154
17DAP/reference	0.9452	0.419
27DAP/reference	0.93342	0.428
39DAP/reference	1.0713	0.679
41DAP/reference	0.83098	0.026
42DAP/reference	0.96105	0.305
43DAP/reference	1.02042	0.924
47DAP/reference	1.02513	1
52DAP/reference	1.01456	0.73
57DAP/reference	1.0626	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9166	0.428
27DAP/17DAP	1.01064	1
39DAP/27DAP	0.93249	0.432
41DAP/39DAP	1.26221	0.65
42DAP/41DAP	0.99485	0.87
43DAP/42DAP	0.91755	0.197
47DAP/43DAP	1.0927	0.383
52DAP/47DAP	0.87171	0.169
57DAP/52DAP	0.8674	0.356
57DAP/7DAP	1.09543	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.5657	0.1
17DAP/reference	1.33094	0.011
27DAP/reference	1.27291	0.06
39DAP/reference	1.36763	0.014
41DAP/reference	1.65152	0.016
42DAP/reference	1.413	0.03
43DAP/reference	1.47044	0.007
47DAP/reference	1.21745	0.178
52DAP/reference	1.36067	0.048
57DAP/reference	1.38623	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07106	0.832
17DAP/reference	0.95805	0.499
27DAP/reference	0.89853	0.139
39DAP/reference	1.06223	0.514
41DAP/reference	0.86712	0.173
42DAP/reference	0.93371	0.355
43DAP/reference	0.78414	0.021
47DAP/reference	0.97379	0.512
52DAP/reference	0.94016	0.433
57DAP/reference	0.89317	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26165	0.033
17DAP/reference	1.07146	0.665
27DAP/reference	1.04027	0.695
39DAP/reference	1.11463	0.116
41DAP/reference	1.12757	0.439
42DAP/reference	1.24696	0.097
43DAP/reference	1.26962	0.139
47DAP/reference	0.82495	0.006
52DAP/reference	1.32315	0.216
57DAP/reference	1.03445	0.827

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93761	1
26DAP/20DAP	1.26518	0.663
34DAP/26DAP	0.99669	0.998
51DAP/34DAP	0.66235	0.164
52DAP/51DAP	0.9381	1
53DAP/52DAP	0.89394	0.587
55DAP/53DAP	0.88573	0.53
57DAP/55DAP	1.33465	0.865
62DAP/57DAP	1.10121	0.902
68DAP/62DAP	1.07302	1
68DAP/14DAP	0.95977	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.74363	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81117	0.072
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.45135
Mature Eggplant/Ripe Tomato	0.92097	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95958	0.961
1-1-2/M82	0.98282	1
12-2/M82	0.95855	0.955
12-4/M82	1.03388	1
1-3/M82	0.87121	0.501
2-1-1/M82	N/A	N/A
2-1/M82	0.90967	0.74
2-6/M82	1.09893	0.405
3-2/M82	N/A	N/A
4-1-1/M82	1.03671	1
4-1/M82	1.27761	0.853
4-3-2/M82	1.0983
4-3/M82	0.86531	0.72
5-3/M82	0.96921	0.642
6-2/M82	N/A	N/A
6-3/M82	0.92841	1
7-1/M82	0.97566	1
7-2/M82	1.04996	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0962	0.493
IL2-6/WTpooled	0.99415	1
IL7-5/WTpooled	0.9652	1
IL7-3/WTpooled	1.00681	1
IL12-4/WTpooled	1.01141	0.891
IL1-4/WTpooled	1.01014	1
WT/WTpooled	0.9776	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	1.13137	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03381	0.921
DC3000/delta hrp 6h	0.7727	0.81
DC3000/delta hrp 12h	1.14121	1
DC3000/delta hrp 24h	1.04757	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18521	0.11
DC3000 delta B/DC3000 delta AB	1.15489	0.363

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.93045	0.661
Exp 60h	1.27425	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0066	1
Var 0h	0.48527	0.291
Var 12h I row2-row1	0.9526	0.856
Var 12h NI row2-row1	1.02889	1
Var 36h I row2-row1	1.14224	0.298
Var 36h NI row2-row1	0.95694	0.791
Var 60h I row2-row1	1.00343	1
Var 60h NI row2-row1	0.83567	0.301
Time course 0hI-0hNI	0.97705	0.845
Time course 12hI-12hNI	1.0083	0.849
Time course 36hI-36hNI	1.3403	0.008
Time course 60hI-60hNI	1.44884	0.009

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)	0.90179	0.286
transgenic ySAMdc/azygous control (breaker)	0.87587	0.251
transgenic ySAMdc/azygous control (red)	0.82477	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12038	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64396	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02303	1
Manapal/WT (break)	0.89093	1
Manapal/WT (red)	0.74671	0.188