Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80143	0.211
27DAP/17DAP	0.87991	0.725
39DAP/27DAP	1.0455	1
41DAP/39DAP	1.02928	0.939
42DAP/41DAP	1.0996	0.931
43DAP/42DAP	1.03853	1
47DAP/43DAP	0.85527	0.546
52DAP/47DAP	1.17373	0.754
57DAP/52DAP	1.00125	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29673	0.031
17DAP/reference	0.96175	0.567
27DAP/reference	0.98957	0.741
39DAP/reference	0.93413	0.178
41DAP/reference	0.83448	0.049
42DAP/reference	1.03218	0.842
43DAP/reference	1.08001	0.569
47DAP/reference	1.00738	1
52DAP/reference	1.01659	0.791
57DAP/reference	1.21809	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97403	0.697
27DAP/17DAP	1.04551	0.872
39DAP/27DAP	0.73883	0.037
41DAP/39DAP	1.12946	0.914
42DAP/41DAP	1.06201	0.8
43DAP/42DAP	1.05557	0.513
47DAP/43DAP	1.02529	0.901
52DAP/47DAP	0.92843	0.612
57DAP/52DAP	0.97192	0.73
57DAP/7DAP	0.7151	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63771	0.035
17DAP/reference	1.29759	0.049
27DAP/reference	1.15848	0.197
39DAP/reference	1.24784	0.008
41DAP/reference	1.35309	0.018
42DAP/reference	1.31819	0.007
43DAP/reference	1.24906	0.037
47DAP/reference	1.30135	0.091
52DAP/reference	1.10144	0.526
57DAP/reference	1.0773	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48424	0.05
17DAP/reference	1.10828	0.156
27DAP/reference	1.1671	0.367
39DAP/reference	0.96801	0.428
41DAP/reference	1.06563	0.459
42DAP/reference	1.03503	0.759
43DAP/reference	1.02856	0.874
47DAP/reference	1.16982	0.069
52DAP/reference	0.80684	0.021
57DAP/reference	0.87433	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.81327	0.017
17DAP/reference	1.30879	0.096
27DAP/reference	1.10403	0.34
39DAP/reference	1.15604	0.075
41DAP/reference	0.99106	0.754
42DAP/reference	1.16641	0.06
43DAP/reference	1.22125	0.051
47DAP/reference	1.0221	1
52DAP/reference	1.20451	0.257
57DAP/reference	0.9811	0.633

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0286	0.966
26DAP/20DAP	2.05256	0.098
34DAP/26DAP	0.71787	0.112
51DAP/34DAP	1.55146	0.059
52DAP/51DAP	1.04881	0.733
53DAP/52DAP	0.82952	0.581
55DAP/53DAP	0.60273	0.098
57DAP/55DAP	1.19193	0.87
62DAP/57DAP	1.19303	0.902
68DAP/62DAP	0.82918	0.747
68DAP/14DAP	1.21101	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.59737	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.75994	0.223
Mature Green Tomato/Ripe Tomato	1.17104	0.048
Immature Eggplant/Mature Eggplant	0.69561	0.068
Ripe Pepper/Ripe Tomato	0.92131	1
Mature Eggplant/Ripe Tomato	0.4797	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88497	0.934
1-1-2/M82	1.10106	1
12-2/M82	0.88496	0.955
12-4/M82	1.04096	1
1-3/M82	2.05339	0.26
2-1-1/M82	1.20438	0.439
2-1/M82	0.56544	0.322
2-6/M82	1.04864	0.695
3-2/M82	1.7524
4-1-1/M82	1.42141	1
4-1/M82	1.16075	1
4-3-2/M82	1.59578	0.508
4-3/M82	2.04345	1
5-3/M82	1.0616	1
6-2/M82	N/A	N/A
6-3/M82	0.70671	0.715
7-1/M82	0.88769	1
7-2/M82	1.90725
9-3-2/M82	1.21438

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95689	1
IL2-6/WTpooled	0.82535	0.473
IL7-5/WTpooled	1.29398	0.792
IL7-3/WTpooled	0.58161	0.31
IL12-4/WTpooled	1.00931	1
IL1-4/WTpooled	1.04693	1
WT/WTpooled	0.89656	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	0.85845	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95772	1
DC3000/delta hrp 6h	1.24015	1
DC3000/delta hrp 12h	0.98421	1
DC3000/delta hrp 24h	0.7015	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97995
DC3000 delta B/DC3000 delta AB	1.20366	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1001	1
Exp 36h	1.18314	1
Exp 60h	0.99702	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.09416	0.936
Var 12h I row2-row1	1.16985	0.654
Var 12h NI row2-row1	1.15007	1
Var 36h I row2-row1	1.04883	1
Var 36h NI row2-row1	1.04147	1
Var 60h I row2-row1	0.48872
Var 60h NI row2-row1	0.92473	1
Time course 0hI-0hNI	0.92794	0.781
Time course 12hI-12hNI	1.07497	0.82
Time course 36hI-36hNI	1.03228	0.874
Time course 60hI-60hNI	1.81043	0.022

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)	1.09824	0.326
transgenic ySAMdc/azygous control (breaker)	1.1146	1
transgenic ySAMdc/azygous control (red)	1.30102	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01133	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81549	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26286	0.307
Manapal/WT (break)	1.11746	1
Manapal/WT (red)	0.80661	0.184