Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08231	0.863
27DAP/17DAP	1.13952	0.92
39DAP/27DAP	0.72027	0.458
41DAP/39DAP	1.62668	0.352
42DAP/41DAP	1.1573	1
43DAP/42DAP	1.03177	0.937
47DAP/43DAP	0.95083	0.724
52DAP/47DAP	1.41131	0.543
57DAP/52DAP	1.27796	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92978	0.238
17DAP/reference	1.00294	1
27DAP/reference	1.02685	0.672
39DAP/reference	1.0576	0.326
41DAP/reference	1.02801	0.759
42DAP/reference	0.95879	0.169
43DAP/reference	1.00739	0.982
47DAP/reference	0.9201	0.011
52DAP/reference	0.93135	0.33
57DAP/reference	0.90957	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02387	0.99
27DAP/17DAP	1.02815	0.915
39DAP/27DAP	0.97835	0.87
41DAP/39DAP	1.10857	0.853
42DAP/41DAP	0.91877	0.625
43DAP/42DAP	1.06185	0.585
47DAP/43DAP	0.98136	0.928
52DAP/47DAP	1.03402	0.862
57DAP/52DAP	1.01324	0.957
57DAP/7DAP	1.21209	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32007	0.067
17DAP/reference	1.49944	0.019
27DAP/reference	1.15712	0.131
39DAP/reference	1.46133	0.005
41DAP/reference	1.44588	0.014
42DAP/reference	1.52946	0.006
43DAP/reference	1.75126	0.008
47DAP/reference	1.09202	0.965
52DAP/reference	1.39569	0.007
57DAP/reference	1.3266	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02767	0.449
17DAP/reference	0.97909	0.447
27DAP/reference	0.87692	0.134
39DAP/reference	0.84704	0.108
41DAP/reference	1.09494	1
42DAP/reference	0.91357	0.098
43DAP/reference	1.1016	0.293
47DAP/reference	1.0106	0.795
52DAP/reference	0.95375	0.187
57DAP/reference	1.02526	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05574	0.397
17DAP/reference	1.0619	0.665
27DAP/reference	1.35261	0.018
39DAP/reference	1.26501	0.022
41DAP/reference	1.1683	0.145
42DAP/reference	1.03463	1
43DAP/reference	0.99513	0.614
47DAP/reference	0.92446	0.315
52DAP/reference	1.34263	0.176
57DAP/reference	0.62606	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97797	1
26DAP/20DAP	0.97784	1
34DAP/26DAP	1.01441	1
51DAP/34DAP	0.92666	0.449
52DAP/51DAP	1.06662	0.396
53DAP/52DAP	1.04311	0.845
55DAP/53DAP	1.02628	0.922
57DAP/55DAP	1.34927	0.805
62DAP/57DAP	1.04453	1
68DAP/62DAP	1.16151	0.539
68DAP/14DAP	0.90201	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97435	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.48987	0.161
Mature Green Tomato/Ripe Tomato	0.87686	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.31433	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94544	0.944
1-1-2/M82	1.0177	1
12-2/M82	0.99668	1
12-4/M82	1.02474	1
1-3/M82	0.55104	0.33
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.1745	0.594
3-2/M82	0.93615	1
4-1-1/M82	0.97728
4-1/M82	0.91179	1
4-3-2/M82	0.91517	1
4-3/M82	0.77072	0.72
5-3/M82	1.02311	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95337	0.476
7-2/M82	1.09041
9-3-2/M82	0.91798	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.44828
IL2-6/WTpooled	1.03357	1
IL7-5/WTpooled	1.03848	1
IL7-3/WTpooled	1.04218	1
IL12-4/WTpooled	1.06458	0.546
IL1-4/WTpooled	1.1113	1
WT/WTpooled	0.91391	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	1.29405	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93826	1
DC3000/delta hrp 6h	1.43553	0.631
DC3000/delta hrp 12h	1.09475	1
DC3000/delta hrp 24h	1.06845	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.35064	0.145
DC3000 delta B/DC3000 delta AB	0.98399	0.961

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94954	1
Exp 36h	1.85175	0.489
Exp 60h	1.5978	0.227

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	0.92114	0.936
Var 12h I row2-row1	1.10224	0.216
Var 12h NI row2-row1	1.01033	1
Var 36h I row2-row1	0.79404	0.805
Var 36h NI row2-row1	0.99865	1
Var 60h I row2-row1	1.6124	1
Var 60h NI row2-row1	1.11959	0.904
Time course 0hI-0hNI	1.0125	0.867
Time course 12hI-12hNI	1.00496	1
Time course 36hI-36hNI	1.08955	0.722
Time course 60hI-60hNI	1.13046	0.216

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)	1.11208	0.283
transgenic ySAMdc/azygous control (breaker)	0.67901	0.132
transgenic ySAMdc/azygous control (red)	0.95019	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98904	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83433	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32149	0.096
Manapal/WT (break)	1.33141	0.381
Manapal/WT (red)	1.53674	0.222