Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64382	0.054
27DAP/17DAP	0.81937	0.491
39DAP/27DAP	1.10095	0.693
41DAP/39DAP	0.78335	0.235
42DAP/41DAP	1.12264	0.916
43DAP/42DAP	0.9792	0.925
47DAP/43DAP	0.92756	0.729
52DAP/47DAP	1.29858	0.401
57DAP/52DAP	0.90968	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.2297	0.008
17DAP/reference	0.95731	0.63
27DAP/reference	1.20085	0.529
39DAP/reference	0.89579	0.37
41DAP/reference	0.76396	0.154
42DAP/reference	0.84674	0.018
43DAP/reference	0.64768	0.013
47DAP/reference	0.66632	0.003
52DAP/reference	0.75332	0.079
57DAP/reference	0.72903	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82018	0.044
27DAP/17DAP	1.18269	0.231
39DAP/27DAP	0.77041	0.035
41DAP/39DAP	0.98142	0.997
42DAP/41DAP	0.99664	0.887
43DAP/42DAP	0.9422	0.293
47DAP/43DAP	1.04531	0.681
52DAP/47DAP	0.96928	0.868
57DAP/52DAP	0.89804	0.334
57DAP/7DAP	1.05503	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22298	0.083
17DAP/reference	1.33011	0.009
27DAP/reference	1.04718	0.551
39DAP/reference	0.83977	0.064
41DAP/reference	0.82793	0.107
42DAP/reference	0.84656	0.014
43DAP/reference	0.83128	0.028
47DAP/reference	0.69901	0.079
52DAP/reference	0.77273	0.011
57DAP/reference	0.72948	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4576	0.097
17DAP/reference	0.99326	0.659
27DAP/reference	0.93375	0.467
39DAP/reference	0.51021	0.01
41DAP/reference	0.70026	0.015
42DAP/reference	0.73027	0.028
43DAP/reference	0.51441	0.002
47DAP/reference	0.72105	0.038
52DAP/reference	0.40163	0.005
57DAP/reference	0.3917	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.9091	0.034
17DAP/reference	1.37596	0.264
27DAP/reference	1.25245	0.036
39DAP/reference	0.94203	0.328
41DAP/reference	0.8954	0.209
42DAP/reference	0.90229	0.361
43DAP/reference	0.72922	0.017
47DAP/reference	0.91851	0.269
52DAP/reference	1.01504	0.763
57DAP/reference	1.11264	0.827

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01105	0.966
26DAP/20DAP	1.09579	0.62
34DAP/26DAP	0.91727	0.841
51DAP/34DAP	0.92894	0.428
52DAP/51DAP	1.00471	0.965
53DAP/52DAP	0.95382	0.803
55DAP/53DAP	1.02141	0.989
57DAP/55DAP	0.99879	0.909
62DAP/57DAP	1.14574	0.515
68DAP/62DAP	1.40723	0.188
68DAP/14DAP	1.21443

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19918	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95144	0.658
Mature Green Tomato/Ripe Tomato	0.87543	0.2
Immature Eggplant/Mature Eggplant	0.21408	0.06
Ripe Pepper/Ripe Tomato	9.0437	0.258
Mature Eggplant/Ripe Tomato	54.8633	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10347
1-1-2/M82	1.0502	1
12-2/M82	0.62534	0.656
12-4/M82	0.90427	1
1-3/M82	0.76506
2-1-1/M82	0.695	0.465
2-1/M82	N/A	N/A
2-6/M82	1.39298	0.594
3-2/M82	0.96197	1
4-1-1/M82	N/A	N/A
4-1/M82	1.22413	0.512
4-3-2/M82	1.21151	0.241
4-3/M82	1.92759	1
5-3/M82	1.02204	1
6-2/M82	0.84383
6-3/M82	1.0696	1
7-1/M82	0.74089
7-2/M82	N/A	N/A
9-3-2/M82	1.2214	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90365	0.243
IL2-6/WTpooled	0.97392	1
IL7-5/WTpooled	0.86091	1
IL7-3/WTpooled	1.52942	0.362
IL12-4/WTpooled	1.32927	0.673
IL1-4/WTpooled	1.07999	1
WT/WTpooled	0.97666	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	0.91981	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99508	1
DC3000/delta hrp 6h	1.14435	0.978
DC3000/delta hrp 12h	0.74777	1
DC3000/delta hrp 24h	1.14759	0.232

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17081	0.094
DC3000 delta B/DC3000 delta AB	0.98998	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9667	1
Exp 36h	0.70711	0.456
Exp 60h	0.55482	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99823	1
Var 0h	0.87975	1
Var 12h I row2-row1	0.81703	0.338
Var 12h NI row2-row1	0.74982	0.466
Var 36h I row2-row1	1.00367	1
Var 36h NI row2-row1	1.06311	1
Var 60h I row2-row1	1.1332	0.543
Var 60h NI row2-row1	0.94874	1
Time course 0hI-0hNI	0.99612	1
Time course 12hI-12hNI	0.91727	0.26
Time course 36hI-36hNI	0.86612	0.024
Time course 60hI-60hNI	0.36985	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)	0.96766	0.614
transgenic ySAMdc/azygous control (breaker)	1.19237	1
transgenic ySAMdc/azygous control (red)	2.05	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.60307	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.27931	0.086
Manapal/WT (break)	4.07432	0.13
Manapal/WT (red)	4.48577	0.142