Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96966	0.77
27DAP/17DAP	1.06356	0.922
39DAP/27DAP	1.15461	0.606
41DAP/39DAP	1.20856	0.359
42DAP/41DAP	0.92235	1
43DAP/42DAP	0.80226	0.583
47DAP/43DAP	1.15781	0.769
52DAP/47DAP	1.48306	0.538
57DAP/52DAP	0.86779	0.727

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00078	0.771
17DAP/reference	0.93813	0.194
27DAP/reference	0.90887	0.065
39DAP/reference	0.97429	0.72
41DAP/reference	0.97409	0.542
42DAP/reference	1.0648	0.182
43DAP/reference	1.1082	0.36
47DAP/reference	1.03715	0.817
52DAP/reference	0.92631	0.121
57DAP/reference	0.87034	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93143	0.484
27DAP/17DAP	1.03902	0.957
39DAP/27DAP	1.13524	0.259
41DAP/39DAP	0.92726	0.849
42DAP/41DAP	1.05938	0.872
43DAP/42DAP	1.03286	0.664
47DAP/43DAP	1.02099	0.941
52DAP/47DAP	0.97378	0.901
57DAP/52DAP	0.99729	0.892
57DAP/7DAP	1.17659	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84408	0.115
17DAP/reference	0.78416	0.011
27DAP/reference	0.70248	0.01
39DAP/reference	0.69574	0.011
41DAP/reference	0.79597	0.049
42DAP/reference	0.71196	0.01
43DAP/reference	0.64062	0.009
47DAP/reference	0.90009	0.383
52DAP/reference	0.6301	0.012
57DAP/reference	0.68566	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13871	0.079
17DAP/reference	1.11573	0.181
27DAP/reference	1.06503	0.757
39DAP/reference	0.95716	0.381
41DAP/reference	0.83839	0.014
42DAP/reference	0.99469	0.655
43DAP/reference	1.1769	0.164
47DAP/reference	0.9561	0.129
52DAP/reference	1.01869	0.938
57DAP/reference	1.28146	0.078

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84849	0.147
17DAP/reference	1.01768	0.839
27DAP/reference	0.78805	0.031
39DAP/reference	0.68198	0.015
41DAP/reference	0.82518	0.032
42DAP/reference	0.76992	0.032
43DAP/reference	0.79928	0.081
47DAP/reference	1.11326	0.251
52DAP/reference	0.74178	0.164
57DAP/reference	0.77649	0.036

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87371	0.42
26DAP/20DAP	0.95304	1
34DAP/26DAP	1.1351	0.304
51DAP/34DAP	1.12235	0.496
52DAP/51DAP	0.94284	1
53DAP/52DAP	1.17609	0.47
55DAP/53DAP	1.05436	0.689
57DAP/55DAP	0.88599	0.448
62DAP/57DAP	1.00531	1
68DAP/62DAP	0.73255	0.053
68DAP/14DAP	0.77608	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87258	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80276	0.26
Mature Green Tomato/Ripe Tomato	0.92124	0.411
Immature Eggplant/Mature Eggplant	1.23469	0.055
Ripe Pepper/Ripe Tomato	0.75425	0.293
Mature Eggplant/Ripe Tomato	0.30534	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19534	0.742
1-1-2/M82	1.02228	1
12-2/M82	1.03247	1
12-4/M82	1.06134	1
1-3/M82	1.048	1
2-1-1/M82	1.12566	0.764
2-1/M82	1.25202	1
2-6/M82	1.12317	0.695
3-2/M82	0.90824
4-1-1/M82	1.11743	0.977
4-1/M82	1.07994	1
4-3-2/M82	0.81043	0.698
4-3/M82	1.01534	1
5-3/M82	0.97079	1
6-2/M82	0.97137	1
6-3/M82	0.96402	1
7-1/M82	1.03131	1
7-2/M82	1.077	1
9-3-2/M82	1.02173	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14605	0.493
IL2-6/WTpooled	0.76387	0.473
IL7-5/WTpooled	1.08741	1
IL7-3/WTpooled	0.9696	1
IL12-4/WTpooled	0.86146	0.71
IL1-4/WTpooled	0.91471	0.699
WT/WTpooled	1.02284	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	1.12882	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99277	1
DC3000/delta hrp 6h	1.06863	1
DC3000/delta hrp 12h	1.06121	1
DC3000/delta hrp 24h	1.00728	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97352	1
DC3000 delta B/DC3000 delta AB	1.08411	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92352	1
Exp 36h	1.07509	1
Exp 60h	1.24824	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01153	1
Var 0h	0.98447	1
Var 12h I row2-row1	1.12595	0.296
Var 12h NI row2-row1	0.99379	1
Var 36h I row2-row1	0.76637	0.805
Var 36h NI row2-row1	0.93769	0.743
Var 60h I row2-row1	0.91374	0.952
Var 60h NI row2-row1	1.17486	0.904
Time course 0hI-0hNI	1.06797	0.63
Time course 12hI-12hNI	1.07906	0.347
Time course 36hI-36hNI	1.05523	0.248
Time course 60hI-60hNI	1.22377	0.017

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)	0.97494	0.454
transgenic ySAMdc/azygous control (breaker)	0.64091	0.15
transgenic ySAMdc/azygous control (red)	0.81098	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00738	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78865	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8507	0.172
Manapal/WT (break)	1.15294	1
Manapal/WT (red)	0.91616	0.607