Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.12.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24513	0.851
27DAP/17DAP	1.16031	1
39DAP/27DAP	1.10296	0.84
41DAP/39DAP	0.77256	0.299
42DAP/41DAP	1.17409	0.908
43DAP/42DAP	0.83262	0.705
47DAP/43DAP	1.18824	0.469
52DAP/47DAP	1.48548	0.69
57DAP/52DAP	1.16305	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0269	0.76
17DAP/reference	0.927	0.021
27DAP/reference	0.97984	0.538
39DAP/reference	0.97563	0.475
41DAP/reference	0.96	0.341
42DAP/reference	1.04827	0.366
43DAP/reference	1.0227	0.646
47DAP/reference	1.06951	0.025
52DAP/reference	1.08065	0.576
57DAP/reference	0.95792	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91203	0.428
27DAP/17DAP	1.04055	0.905
39DAP/27DAP	1.0705	0.581
41DAP/39DAP	0.97893	0.986
42DAP/41DAP	0.93092	0.469
43DAP/42DAP	1.07606	0.122
47DAP/43DAP	1.01543	0.973
52DAP/47DAP	0.98476	0.901
57DAP/52DAP	0.98168	0.756
57DAP/7DAP	1.25378	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79032	0.077
17DAP/reference	0.93648	0.338
27DAP/reference	0.85727	0.051
39DAP/reference	1.08428	0.634
41DAP/reference	0.91142	0.139
42DAP/reference	0.8734	0.178
43DAP/reference	0.93946	0.403
47DAP/reference	0.90717	0.168
52DAP/reference	1.12241	0.401
57DAP/reference	1.0464	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05974	0.304
17DAP/reference	1.08277	0.229
27DAP/reference	1.01727	1
39DAP/reference	1.00252	0.682
41DAP/reference	1.01545	1
42DAP/reference	0.97976	0.534
43DAP/reference	1.25596	0.259
47DAP/reference	0.90593	0.038
52DAP/reference	1.01729	0.629
57DAP/reference	1.11725	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9987	0.699
17DAP/reference	0.95288	0.348
27DAP/reference	0.89554	0.048
39DAP/reference	0.88763	0.037
41DAP/reference	0.9468	0.371
42DAP/reference	0.98303	0.816
43DAP/reference	1.14965	0.314
47DAP/reference	0.90357	0.06
52DAP/reference	1.11026	0.694
57DAP/reference	1.02458	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00901	1
26DAP/20DAP	0.92248	0.512
34DAP/26DAP	0.98159	0.991
51DAP/34DAP	0.97682	0.835
52DAP/51DAP	0.96684	1
53DAP/52DAP	0.96411	0.776
55DAP/53DAP	1.157	0.341
57DAP/55DAP	1.15479	0.764
62DAP/57DAP	0.88803	0.28
68DAP/62DAP	0.78617	0.227
68DAP/14DAP	0.929	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75554	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.20816	0.113
Mature Green Tomato/Ripe Tomato	1.17852
Immature Eggplant/Mature Eggplant	0.7312	0.063
Ripe Pepper/Ripe Tomato	2.33844	1
Mature Eggplant/Ripe Tomato	2.34994	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.40398
12-2/M82	N/A	N/A
12-4/M82	0.65481
1-3/M82	N/A	N/A
2-1-1/M82	1.33545
2-1/M82	N/A	N/A
2-6/M82	1.22407
3-2/M82	1.34316
4-1-1/M82	1.32546
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.28026
6-2/M82	1.47494
6-3/M82	N/A	N/A
7-1/M82	0.84201
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	1.58111	0.277
IL2-6/WTpooled	0.89593	1
IL7-5/WTpooled	1.19515	1
IL7-3/WTpooled	1.3478	1
IL12-4/WTpooled	1.18979	0.525
IL1-4/WTpooled	1.11361	1
WT/WTpooled	0.91371	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	1.08777	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94803	1
DC3000/delta hrp 6h	0.87522	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.26687	0.085

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.83113	0.026
DC3000 delta B/DC3000 delta AB	0.93429	0.575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01542	1
Exp 36h	0.82188	0.589
Exp 60h	0.98552	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94169	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.93448	0.514
Var 12h NI row2-row1	1.01001	1
Var 36h I row2-row1	0.88022	0.805
Var 36h NI row2-row1	1.05196	1
Var 60h I row2-row1	0.99408	1
Var 60h NI row2-row1	0.97313	1
Time course 0hI-0hNI	1.01927	0.719
Time course 12hI-12hNI	0.94657	0.526
Time course 36hI-36hNI	0.92937	0.15
Time course 60hI-60hNI	0.73725	0.009

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)	1.06667	0.292
transgenic ySAMdc/azygous control (breaker)	0.70587	0.251
transgenic ySAMdc/azygous control (red)	1.14514	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09346	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86764	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75122	1
Manapal/WT (break)	0.94306	1
Manapal/WT (red)	1.28898	0.222