Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09905	0.827
27DAP/17DAP	1.24561	0.785
39DAP/27DAP	0.84183	0.522
41DAP/39DAP	1.42957	0.416
42DAP/41DAP	0.89421	1
43DAP/42DAP	1.03366	1
47DAP/43DAP	0.94781	0.804
52DAP/47DAP	0.89241	0.685
57DAP/52DAP	1.10121	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40356	0.028
17DAP/reference	1.41525	0.014
27DAP/reference	1.16611	0.405
39DAP/reference	1.19734	0.032
41DAP/reference	1.80845	0.019
42DAP/reference	1.23184	0.021
43DAP/reference	1.00646	0.924
47DAP/reference	1.23427	0.024
52DAP/reference	1.07018	0.453
57DAP/reference	0.92667	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91894	0.289
27DAP/17DAP	1.02105	0.932
39DAP/27DAP	1.06073	0.623
41DAP/39DAP	1.0085	0.909
42DAP/41DAP	1.01086	1
43DAP/42DAP	1.12221	0.032
47DAP/43DAP	1.01397	0.926
52DAP/47DAP	1.00239	0.982
57DAP/52DAP	1.06154	0.643
57DAP/7DAP	1.14328	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89939	0.104
17DAP/reference	0.89122	0.02
27DAP/reference	0.87522	0.012
39DAP/reference	0.95605	0.083
41DAP/reference	0.95501	0.284
42DAP/reference	0.93372	0.082
43DAP/reference	0.93953	0.066
47DAP/reference	1.0945	1
52DAP/reference	0.94869	0.083
57DAP/reference	0.89773	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11355	0.559
17DAP/reference	1.2209	0.081
27DAP/reference	1.2651	0.128
39DAP/reference	1.12992	0.543
41DAP/reference	1.07007	0.766
42DAP/reference	1.39448	0.011
43DAP/reference	1.18011	0.179
47DAP/reference	1.28071	0.031
52DAP/reference	1.34857	0.011
57DAP/reference	1.68178	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12798	0.676
17DAP/reference	1.01269	0.944
27DAP/reference	0.90591	0.078
39DAP/reference	0.97672	0.643
41DAP/reference	0.96147	0.417
42DAP/reference	0.85521	0.049
43DAP/reference	1.02584	0.91
47DAP/reference	1.31005	0.066
52DAP/reference	0.90801	0.405
57DAP/reference	0.78997	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.40053	0.773
26DAP/20DAP	0.93558	1
34DAP/26DAP	1.12718	0.819
51DAP/34DAP	0.92666	0.571
52DAP/51DAP	1.04625	0.689
53DAP/52DAP	1.01032	1
55DAP/53DAP	1.1162	0.415
57DAP/55DAP	1.38396	0.118
62DAP/57DAP	1.16831	0.678
68DAP/62DAP	0.84934	0.505
68DAP/14DAP	0.75692	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04017	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.67912	0.023
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	N/A	N/A
1-1-2/M82	0.92546
12-2/M82	N/A	N/A
12-4/M82	0.79023
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.67109
4-3-2/M82	0.68041
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.94638
7-2/M82	N/A	N/A
9-3-2/M82	0.869	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19969	0.493
IL2-6/WTpooled	0.87053	0.473
IL7-5/WTpooled	0.53926	1
IL7-3/WTpooled	1.01605	1
IL12-4/WTpooled	1.07343	0.695
IL1-4/WTpooled	0.90703	0.562
WT/WTpooled	1.07615	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	0.71766	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87837	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.26077	1
DC3000/delta hrp 24h	0.87537

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01482	1
DC3000 delta B/DC3000 delta AB	1.03482	0.609

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94225	1
Var 0h	0.94314	1
Var 12h I row2-row1	1.18996	0.473
Var 12h NI row2-row1	0.95534	0.82
Var 36h I row2-row1	1.06479	1
Var 36h NI row2-row1	1.17251	1
Var 60h I row2-row1	1.22583	0.543
Var 60h NI row2-row1	1.18103	0.904
Time course 0hI-0hNI	1.10166	0.764
Time course 12hI-12hNI	1.08036	0.724
Time course 36hI-36hNI	0.91211	0.078
Time course 60hI-60hNI	0.89712	0.161

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	1.04667	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.03529	1
Manapal/WT (red)	1.4673	1