Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.17.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06357	0.912
27DAP/17DAP	1.24417	0.866
39DAP/27DAP	1.185	0.893
41DAP/39DAP	0.78667	0.412
42DAP/41DAP	1.4516	0.412
43DAP/42DAP	1.0897	1
47DAP/43DAP	1.25615	0.68
52DAP/47DAP	1.0211	0.662
57DAP/52DAP	1.13561	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16383	0.052
17DAP/reference	1.29799	0.03
27DAP/reference	1.1937	0.111
39DAP/reference	1.01783	1
41DAP/reference	1.39324	0.093
42DAP/reference	1.18145	0.231
43DAP/reference	1.08158	0.812
47DAP/reference	1.23396	0.009
52DAP/reference	1.31665	0.011
57DAP/reference	1.1005	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86621	0.415
27DAP/17DAP	1.15533	0.976
39DAP/27DAP	0.90612	0.322
41DAP/39DAP	0.92171	0.893
42DAP/41DAP	0.9843	0.776
43DAP/42DAP	1.28081	0.273
47DAP/43DAP	1.00304	0.99
52DAP/47DAP	0.94203	0.876
57DAP/52DAP	0.88043	0.422
57DAP/7DAP	1.42321	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77807	0.066
17DAP/reference	0.88531	0.167
27DAP/reference	0.89467	0.094
39DAP/reference	0.71722	0.012
41DAP/reference	0.74475	0.054
42DAP/reference	0.75173	0.042
43DAP/reference	0.83296	0.095
47DAP/reference	0.65858	0.293
52DAP/reference	0.73365	0.061
57DAP/reference	0.64686	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00418	0.706
17DAP/reference	1.04908	0.824
27DAP/reference	0.95824	0.483
39DAP/reference	0.99901	0.642
41DAP/reference	1.29342	0.157
42DAP/reference	1.1985	0.214
43DAP/reference	1.51857	0.226
47DAP/reference	1.16343	0.081
52DAP/reference	1.22442	0.034
57DAP/reference	1.13052	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8843	0.169
17DAP/reference	1.05931	0.833
27DAP/reference	0.85729	0.041
39DAP/reference	0.94782	0.43
41DAP/reference	1.00235	0.826
42DAP/reference	1.01408	0.979
43DAP/reference	0.87451	0.095
47DAP/reference	1.36332	0.279
52DAP/reference	0.92119	0.464
57DAP/reference	1.19528	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77812	0.012
26DAP/20DAP	1.18367	0.534
34DAP/26DAP	1.49661	0.819
51DAP/34DAP	1.31127	0.613
52DAP/51DAP	1.35579	0.404
53DAP/52DAP	0.85128	0.807
55DAP/53DAP	1.05539	1
57DAP/55DAP	1.19594	0.301
62DAP/57DAP	1.12526	1
68DAP/62DAP	1.63024	0.7
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.46257	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.48998	0.055
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.76606	0.234

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	1.04356
12-4/M82	0.88112
1-3/M82	0.93789
2-1-1/M82	1.22703
2-1/M82	N/A	N/A
2-6/M82	1.39302
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.00778
4-3-2/M82	N/A	N/A
4-3/M82	0.99336
5-3/M82	0.95447	1
6-2/M82	0.89091	1
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	0.97156
IL2-6/WTpooled	0.93232	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.83886	1
IL12-4/WTpooled	0.85696	0.478
IL1-4/WTpooled	0.66187	0.834
WT/WTpooled	1.06213	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	0.90172	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00041	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.37918	1
DC3000/delta hrp 24h	0.90792	0.313

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95249
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	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	1.04722	1
Var 0h	1.21128	0.98
Var 12h I row2-row1	0.95601	0.856
Var 12h NI row2-row1	1.0732	0.281
Var 36h I row2-row1	0.99579	1
Var 36h NI row2-row1	0.9519	0.706
Var 60h I row2-row1	1.1075	0.543
Var 60h NI row2-row1	0.89881	0.69
Time course 0hI-0hNI	0.95069	0.721
Time course 12hI-12hNI	0.97768	0.814
Time course 36hI-36hNI	0.80564	0.052
Time course 60hI-60hNI	0.60309	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.1151	0.92

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	1.36543	0.237

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)	0.76573	0.333
Manapal/WT (red)	1.39783	0.164