Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.8.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6217	0.037
27DAP/17DAP	1.26439	0.864
39DAP/27DAP	0.73419	0.361
41DAP/39DAP	0.95794	0.772
42DAP/41DAP	1.14775	0.962
43DAP/42DAP	0.95663	0.898
47DAP/43DAP	0.86186	0.562
52DAP/47DAP	0.84367	0.602
57DAP/52DAP	0.97826	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09355	0.252
17DAP/reference	1.16819	0.068
27DAP/reference	1.04581	0.58
39DAP/reference	1.04429	0.504
41DAP/reference	1.10589	0.312
42DAP/reference	1.04493	0.449
43DAP/reference	1.03955	0.547
47DAP/reference	0.90963	0.032
52DAP/reference	0.93393	0.202
57DAP/reference	0.96904	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12155	0.464
27DAP/17DAP	0.98578	0.919
39DAP/27DAP	0.82113	0.239
41DAP/39DAP	1.33784	0.326
42DAP/41DAP	0.82786	0.104
43DAP/42DAP	1.01481	1
47DAP/43DAP	1.02398	0.914
52DAP/47DAP	1.39942	0.186
57DAP/52DAP	1.83164	0.035
57DAP/7DAP	1.57023	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0959	0.435
17DAP/reference	0.87553	0.082
27DAP/reference	0.85472	0.017
39DAP/reference	0.83353	0.013
41DAP/reference	0.86802	0.056
42DAP/reference	0.92985	0.16
43DAP/reference	0.83079	0.031
47DAP/reference	1.00516	1
52DAP/reference	0.90015	0.179
57DAP/reference	0.90366	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01346	0.97
17DAP/reference	0.92266	0.269
27DAP/reference	0.9326	0.304
39DAP/reference	0.91911	0.097
41DAP/reference	1.07826	0.737
42DAP/reference	1.17003	0.207
43DAP/reference	1.08579	0.641
47DAP/reference	1.08226	0.311
52DAP/reference	0.93735	0.203
57DAP/reference	0.88324	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99041	0.653
17DAP/reference	0.97073	0.592
27DAP/reference	0.77631	0.035
39DAP/reference	0.81445	0.018
41DAP/reference	0.83293	0.037
42DAP/reference	0.81892	0.016
43DAP/reference	0.89409	0.137
47DAP/reference	1.11356	0.196
52DAP/reference	0.91873	0.493
57DAP/reference	1.11095	0.462

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08215	0.966
26DAP/20DAP	1.6443	0.325
34DAP/26DAP	1.01533	1
51DAP/34DAP	0.78592	0.19
52DAP/51DAP	0.96348	1
53DAP/52DAP	1.06879	0.935
55DAP/53DAP	0.90297	0.515
57DAP/55DAP	1.20266	0.935
62DAP/57DAP	1.16856	0.569
68DAP/62DAP	0.86451	0.641
68DAP/14DAP	4.78357

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87686	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.46951	0.089
Mature Green Tomato/Ripe Tomato	0.9932
Immature Eggplant/Mature Eggplant	0.55647	0.064
Ripe Pepper/Ripe Tomato	1.21269
Mature Eggplant/Ripe Tomato	1.82852	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.74551
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	1.05332
4-1-1/M82	N/A	N/A
4-1/M82	0.70286
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96715	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03941	0.493
IL2-6/WTpooled	0.99977	1
IL7-5/WTpooled	0.97103	1
IL7-3/WTpooled	0.98715
IL12-4/WTpooled	0.86294	0.71
IL1-4/WTpooled	0.97417	1
WT/WTpooled	0.89612	0.425

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	1.24387	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95979	1
DC3000/delta hrp 6h	0.91522	0.95
DC3000/delta hrp 12h	1.33708	1
DC3000/delta hrp 24h	0.67211	0.038

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	0.87071	0.253

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.37886	0.328
Exp 36h	0.80988	0.699
Exp 60h	0.39405	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05024	1
Var 0h	1.10136	0.936
Var 12h I row2-row1	1.00934	1
Var 12h NI row2-row1	0.95659	0.466
Var 36h I row2-row1	0.97942	1
Var 36h NI row2-row1	0.93299	0.378
Var 60h I row2-row1	1.21907	0.562
Var 60h NI row2-row1	1.19746	0.904
Time course 0hI-0hNI	0.94978	0.711
Time course 12hI-12hNI	0.92759	0.501
Time course 36hI-36hNI	0.81138	0.042
Time course 60hI-60hNI	0.73116	0.011

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)	1.30001	0.36
transgenic ySAMdc/azygous control (breaker)	1.42957	0.165
transgenic ySAMdc/azygous control (red)	1.11059	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02816	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85799	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93478	1
Manapal/WT (break)	1.10976	1
Manapal/WT (red)	0.69811	0.274