Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.2.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01791	0.977
27DAP/17DAP	1.05597	0.9
39DAP/27DAP	0.92886	0.631
41DAP/39DAP	1.24517	0.225
42DAP/41DAP	0.89999	1
43DAP/42DAP	0.9173	0.705
47DAP/43DAP	1.13317	0.584
52DAP/47DAP	1.07367	0.832
57DAP/52DAP	1.16781	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97155	0.489
17DAP/reference	1.00298	1
27DAP/reference	0.95894	0.395
39DAP/reference	0.93021	0.088
41DAP/reference	1.00794	0.963
42DAP/reference	1.05425	0.016
43DAP/reference	0.93994	0.222
47DAP/reference	1.00876	1
52DAP/reference	1.08501	0.286
57DAP/reference	0.91803	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02746	0.975
27DAP/17DAP	1.0701	0.747
39DAP/27DAP	1.13135	0.2
41DAP/39DAP	0.95898	0.885
42DAP/41DAP	1.02058	0.984
43DAP/42DAP	1.04229	0.788
47DAP/43DAP	1.00339	1
52DAP/47DAP	1.19303	0.484
57DAP/52DAP	0.98001	0.768
57DAP/7DAP	0.77057	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92321	0.08
17DAP/reference	0.9412	0.072
27DAP/reference	0.97479	0.231
39DAP/reference	0.93941	0.018
41DAP/reference	0.94739	0.174
42DAP/reference	N/A	N/A
43DAP/reference	0.90188	0.061
47DAP/reference	0.91839	0.383
52DAP/reference	0.83188	0.061
57DAP/reference	0.97323	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02584	0.62
17DAP/reference	1.00304	1
27DAP/reference	1.06073	0.629
39DAP/reference	1.10708	0.412
41DAP/reference	1.03117	1
42DAP/reference	0.98788	0.594
43DAP/reference	0.9696	0.539
47DAP/reference	0.86404	0.011
52DAP/reference	1.12712	0.05
57DAP/reference	1.01334	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92535	0.063
17DAP/reference	1.00359	1
27DAP/reference	0.98086	0.442
39DAP/reference	0.95072	0.163
41DAP/reference	0.96147	0.237
42DAP/reference	0.99443	0.816
43DAP/reference	1.11349	0.505
47DAP/reference	0.92746	0.125
52DAP/reference	0.94722	0.472
57DAP/reference	1.20161	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05453	0.966
26DAP/20DAP	0.8266	0.151
34DAP/26DAP	0.93343	0.783
51DAP/34DAP	1.16446	0.524
52DAP/51DAP	1.09193	0.588
53DAP/52DAP	0.84668	0.572
55DAP/53DAP	1.15362	0.737
57DAP/55DAP	0.96351	0.823
62DAP/57DAP	1.09084	0.833
68DAP/62DAP	1.04815	0.984
68DAP/14DAP	1.02122	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96211	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.48146	0.026
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13286	0.432
1-1-2/M82	0.90233	0.804
12-2/M82	1.13453	1
12-4/M82	1.2211	0.694
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.03334	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.01682	N/A
4-3-2/M82	0.78216	0.698
4-3/M82	N/A	N/A
5-3/M82	0.97029	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.09077	N/A
7-2/M82	1.14898	N/A
9-3-2/M82	0.83574	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25968	0.277
IL2-6/WTpooled	1.06348	0.531
IL7-5/WTpooled	2.56848	N/A
IL7-3/WTpooled	1.13063	0.362
IL12-4/WTpooled	1.06321	0.737
IL1-4/WTpooled	1.22081	1
WT/WTpooled	0.85491	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	1.01777	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05654	0.921
DC3000/delta hrp 6h	1.85632	1
DC3000/delta hrp 12h	1.06938	1
DC3000/delta hrp 24h	1.03055	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16177	0.313
DC3000 delta B/DC3000 delta AB	1.26115	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95251	1
Exp 36h	0.79899	0.699
Exp 60h	0.57213	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96003	1
Var 0h	0.60363	0.933
Var 12h I row2-row1	0.87347	0.418
Var 12h NI row2-row1	0.9919	1
Var 36h I row2-row1	0.99083	1
Var 36h NI row2-row1	1.81245	1
Var 60h I row2-row1	0.92566	0.832
Var 60h NI row2-row1	1.30204	0.904
Time course 0hI-0hNI	0.98696	0.981
Time course 12hI-12hNI	0.97521	0.87
Time course 36hI-36hNI	0.88146	0.121
Time course 60hI-60hNI	0.51656	0.006

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)	1.47024	0.331
transgenic ySAMdc/azygous control (breaker)	1.21675	1
transgenic ySAMdc/azygous control (red)	1.08581	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0013	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.3558	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.45104	0.172
Manapal/WT (break)	1.02404	1
Manapal/WT (red)	0.57386	0.181