Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.13.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14489	0.725
27DAP/17DAP	0.81346	0.509
39DAP/27DAP	0.97435	0.733
41DAP/39DAP	1.10114	0.649
42DAP/41DAP	1.11644	1
43DAP/42DAP	0.97664	0.925
47DAP/43DAP	1.21792	0.208
52DAP/47DAP	1.18449	0.681
57DAP/52DAP	1.08238	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88751	0.172
17DAP/reference	0.9859	0.737
27DAP/reference	1.02385	0.806
39DAP/reference	1.12039	0.524
41DAP/reference	0.93951	0.434
42DAP/reference	0.93944	0.145
43DAP/reference	1.09558	0.175
47DAP/reference	0.96872	0.322
52DAP/reference	0.97037	0.461
57DAP/reference	0.97875	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8418	0.299
27DAP/17DAP	1.11084	0.724
39DAP/27DAP	1.12128	0.718
41DAP/39DAP	1.04457	0.837
42DAP/41DAP	1.0428	0.999
43DAP/42DAP	1.0997	0.513
47DAP/43DAP	1.34499	0.3
52DAP/47DAP	0.77718	0.179
57DAP/52DAP	0.90894	0.407
57DAP/7DAP	1.05007

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84087	0.077
17DAP/reference	1.03257	1
27DAP/reference	1.03979	0.804
39DAP/reference	1.19	0.333
41DAP/reference	1.04375	1
42DAP/reference	0.92408	0.275
43DAP/reference	1.16257	0.14
47DAP/reference	0.94356	0.504
52DAP/reference	0.91453	0.179
57DAP/reference	1.01537	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06623	0.852
17DAP/reference	1.01752	0.979
27DAP/reference	0.95504	0.423
39DAP/reference	0.91592	0.221
41DAP/reference	0.90886	0.212
42DAP/reference	0.82084	0.02
43DAP/reference	1.14487	0.173
47DAP/reference	0.9594	0.277
52DAP/reference	1.00402	1
57DAP/reference	1.11835	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96348	0.489
17DAP/reference	1.05032	0.824
27DAP/reference	1.2434	0.045
39DAP/reference	1.23012	0.017
41DAP/reference	1.00451	1
42DAP/reference	0.98737	0.816
43DAP/reference	0.82374	0.131
47DAP/reference	0.93924	0.348
52DAP/reference	1.43697	0.714
57DAP/reference	0.87752	0.143

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.31989	0.945
26DAP/20DAP	1.05662	0.924
34DAP/26DAP	1.03026	1
51DAP/34DAP	0.71315	0.341
52DAP/51DAP	0.95942	1
53DAP/52DAP	0.75568	0.27
55DAP/53DAP	0.92265	0.761
57DAP/55DAP	0.78549	0.219
62DAP/57DAP	1.31278	0.217
68DAP/62DAP	0.90125	0.668
68DAP/14DAP	0.9	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92189	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.45041	0.058
Mature Green Tomato/Ripe Tomato	1.20704	0.69
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.24459
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.37115	0.574
1-1-2/M82	0.99557	1
12-2/M82	1.07258
12-4/M82	0.72108	1
1-3/M82	0.81615
2-1-1/M82	0.86638	0.565
2-1/M82	N/A	N/A
2-6/M82	0.95344	1
3-2/M82	0.78818
4-1-1/M82	N/A	N/A
4-1/M82	1.4019
4-3-2/M82	1.18743
4-3/M82	1.13102
5-3/M82	1.0504	1
6-2/M82	0.60472
6-3/M82	0.8766	0.308
7-1/M82	N/A	N/A
7-2/M82	0.73297	0.578
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03884	1
IL2-6/WTpooled	1.05791	0.788
IL7-5/WTpooled	0.72615
IL7-3/WTpooled	1.07042	1
IL12-4/WTpooled	1.03646	0.538
IL1-4/WTpooled	1.09537	1
WT/WTpooled	0.95807	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	1.10832	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98234	1
DC3000/delta hrp 6h	0.75837	0.95
DC3000/delta hrp 12h	1.10374	1
DC3000/delta hrp 24h	1.06552	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.00103	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.11743	1
Var 0h	1.03858	1
Var 12h I row2-row1	1.12229	0.379
Var 12h NI row2-row1	0.94695	0.627
Var 36h I row2-row1	0.90462	0.805
Var 36h NI row2-row1	0.92536	0.314
Var 60h I row2-row1	1.05507	1
Var 60h NI row2-row1	0.7415	0.904
Time course 0hI-0hNI	0.92198	0.397
Time course 12hI-12hNI	0.93031	0.39
Time course 36hI-36hNI	0.85059	0.023
Time course 60hI-60hNI	0.99204	1

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)	1.04974	0.863
transgenic ySAMdc/azygous control (breaker)	0.99219	1
transgenic ySAMdc/azygous control (red)	0.9725	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98278	0.156

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17788	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00858	1
Manapal/WT (break)	1.01852	1
Manapal/WT (red)	1.08224	1