Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.9.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85693	0.405
27DAP/17DAP	0.89376	0.749
39DAP/27DAP	1.34235	0.365
41DAP/39DAP	1.20319	0.603
42DAP/41DAP	1.04792	0.926
43DAP/42DAP	1.13919	1
47DAP/43DAP	0.9986	0.934
52DAP/47DAP	1.07402	0.943
57DAP/52DAP	1.44585	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86293	0.087
17DAP/reference	1.03485	0.606
27DAP/reference	1.15718	0.139
39DAP/reference	0.97326	0.513
41DAP/reference	1.05576	0.552
42DAP/reference	1.06666	0.656
43DAP/reference	1.18161	0.089
47DAP/reference	1.12501	0.329
52DAP/reference	1.43242	0.072
57DAP/reference	1.0614	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15317	0.184
27DAP/17DAP	0.94614	0.724
39DAP/27DAP	1.06571	0.519
41DAP/39DAP	1.06029	0.895
42DAP/41DAP	1.1035	0.694
43DAP/42DAP	1.07796	0.554
47DAP/43DAP	1.09748	0.396
52DAP/47DAP	0.93679	0.834
57DAP/52DAP	1.07627	0.65
57DAP/7DAP	0.99955	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2388	0.088
17DAP/reference	1.1561	0.134
27DAP/reference	1.14879	0.035
39DAP/reference	1.18032	0.044
41DAP/reference	0.8976	0.284
42DAP/reference	0.95282	0.371
43DAP/reference	0.963	0.22
47DAP/reference	0.99277	0.671
52DAP/reference	1.03631	0.684
57DAP/reference	1.04663	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13291	0.545
17DAP/reference	0.98698	0.659
27DAP/reference	0.96447	0.438
39DAP/reference	0.94959	0.129
41DAP/reference	1.15658	0.115
42DAP/reference	1.02794	1
43DAP/reference	0.98379	0.67
47DAP/reference	1.26474	0.112
52DAP/reference	0.79212	0.051
57DAP/reference	1.2951	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24612	0.058
17DAP/reference	0.99049	0.778
27DAP/reference	1.09368	0.171
39DAP/reference	1.10907	0.235
41DAP/reference	1.13591	0.397
42DAP/reference	0.98614	0.671
43DAP/reference	1.16198	0.098
47DAP/reference	1.06665	1
52DAP/reference	1.34159	0.083
57DAP/reference	1.18089	0.085

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89901	1
26DAP/20DAP	1.52888	0.122
34DAP/26DAP	0.86341	0.182
51DAP/34DAP	1.33424	0.185
52DAP/51DAP	0.82446	1
53DAP/52DAP	1.30362	0.097
55DAP/53DAP	0.81165	0.188
57DAP/55DAP	1.23845	0.448
62DAP/57DAP	0.75396	0.088
68DAP/62DAP	0.75815	0.378
68DAP/14DAP	0.92469	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83366	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.50787	0.167
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.08786	0.239
Ripe Pepper/Ripe Tomato	1.47768	0.256
Mature Eggplant/Ripe Tomato	0.79532	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.82789	1
12-2/M82	N/A	N/A
12-4/M82	0.87123	0.619
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	0.6919
4-3-2/M82	0.89373	0.487
4-3/M82	N/A	N/A
5-3/M82	1.63105
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.18871
7-2/M82	N/A	N/A
9-3-2/M82	0.87649

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87076	0.247
IL2-6/WTpooled	0.89796	0.473
IL7-5/WTpooled	0.95474	1
IL7-3/WTpooled	0.9489	1
IL12-4/WTpooled	0.89564	0.554
IL1-4/WTpooled	0.93244	0.476
WT/WTpooled	1.07235	0.805

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	1.01231	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.36906	0.629
DC3000/delta hrp 6h	0.96525	0.95
DC3000/delta hrp 12h	0.96765	1
DC3000/delta hrp 24h	1.03628	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.66566	0.145
DC3000 delta B/DC3000 delta AB	1.25571	0.179

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21153	1
Exp 36h	1.21228	0.693
Exp 60h	3.1926	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01504	1
Var 0h	0.54297	1
Var 12h I row2-row1	0.92669	0.627
Var 12h NI row2-row1	1.00235	1
Var 36h I row2-row1	1.19748	0.908
Var 36h NI row2-row1	0.79876	0.478
Var 60h I row2-row1	0.82478	0.439
Var 60h NI row2-row1	0.84583	0.431
Time course 0hI-0hNI	1.02035	0.867
Time course 12hI-12hNI	1.11314	0.49
Time course 36hI-36hNI	1.3459	0.025
Time course 60hI-60hNI	2.63106	0.008

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)	0.90549	0.289
transgenic ySAMdc/azygous control (breaker)	0.86316	0.251
transgenic ySAMdc/azygous control (red)	1.12046	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10498	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71841	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02608	1
Manapal/WT (break)	1.00546	1
Manapal/WT (red)	1.02622	1