Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21673	0.602
27DAP/17DAP	0.84859	0.611
39DAP/27DAP	0.8922	0.537
41DAP/39DAP	1.23191	0.522
42DAP/41DAP	1.25981	0.719
43DAP/42DAP	0.93027	0.754
47DAP/43DAP	1.10436	0.793
52DAP/47DAP	0.66137	0.206
57DAP/52DAP	0.79426	0.662

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92561	0.14
17DAP/reference	0.9144	0.079
27DAP/reference	0.92779	0.061
39DAP/reference	0.88392	0.051
41DAP/reference	0.96326	0.154
42DAP/reference	0.90053	0.006
43DAP/reference	0.96665	0.191
47DAP/reference	0.96069	0.055
52DAP/reference	0.84567	0.023
57DAP/reference	1.04931	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05716	0.708
27DAP/17DAP	0.90503	0.508
39DAP/27DAP	1.13861	0.383
41DAP/39DAP	0.85707	0.186
42DAP/41DAP	1.09209	0.47
43DAP/42DAP	1.09248	0.478
47DAP/43DAP	0.97607	0.896
52DAP/47DAP	0.9805	0.925
57DAP/52DAP	0.94476	0.641
57DAP/7DAP	1.09233	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.28194	0.031
17DAP/reference	1.5991	0.012
27DAP/reference	1.32044	0.035
39DAP/reference	1.21524	0.017
41DAP/reference	1.19681	0.291
42DAP/reference	1.10147	0.534
43DAP/reference	1.27489	0.037
47DAP/reference	0.92118	0.383
52DAP/reference	0.97692	0.523
57DAP/reference	0.95911	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99233	0.869
17DAP/reference	0.92299	0.109
27DAP/reference	0.93996	0.084
39DAP/reference	0.7984	0.013
41DAP/reference	0.92738	0.145
42DAP/reference	0.95141	0.289
43DAP/reference	0.89432	0.191
47DAP/reference	1.03156	0.589
52DAP/reference	0.81448	0.004
57DAP/reference	0.82566	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59407	0.019
17DAP/reference	1.09178	0.833
27DAP/reference	1.14377	0.171
39DAP/reference	1.16938	0.218
41DAP/reference	1.02747	1
42DAP/reference	1.11072	0.6
43DAP/reference	1.06177	0.815
47DAP/reference	0.79687	0.005
52DAP/reference	1.48031	0.405
57DAP/reference	0.8712	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01346	0.966
26DAP/20DAP	1.14663	0.534
34DAP/26DAP	0.92701	0.741
51DAP/34DAP	1.06726	0.759
52DAP/51DAP	1.00008	1
53DAP/52DAP	0.7563	0.059
55DAP/53DAP	1.13815	0.755
57DAP/55DAP	1.24414	0.074
62DAP/57DAP	0.84525	0.28
68DAP/62DAP	0.88624	0.543
68DAP/14DAP	0.91527	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97806	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.01225	0.058
Mature Green Tomato/Ripe Tomato	1.42415	0.478
Immature Eggplant/Mature Eggplant	0.82898	0.084
Ripe Pepper/Ripe Tomato	1.66019	1
Mature Eggplant/Ripe Tomato	0.92308	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.80749	0.574
1-1-2/M82	1.14521	1
12-2/M82	1.16974	1
12-4/M82	1.2787	1
1-3/M82	N/A	N/A
2-1-1/M82	0.70294
2-1/M82	0.9426	1
2-6/M82	1.48909	0.405
3-2/M82	N/A	N/A
4-1-1/M82	0.61865
4-1/M82	N/A	N/A
4-3-2/M82	1.52365
4-3/M82	1.11134
5-3/M82	1.00899	1
6-2/M82	2.5965
6-3/M82	0.63513
7-1/M82	0.66419
7-2/M82	1.32959	0.324
9-3-2/M82	1.71149

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.5489	0.277
IL2-6/WTpooled	0.93227	0.348
IL7-5/WTpooled	0.84083	1
IL7-3/WTpooled	1.10162	1
IL12-4/WTpooled	1.10924	0.646
IL1-4/WTpooled	1.10827	1
WT/WTpooled	1.04764	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	1.06659	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92023	1
DC3000/delta hrp 6h	1.07337	1
DC3000/delta hrp 12h	0.97958	1
DC3000/delta hrp 24h	0.57159	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04176	1
DC3000 delta B/DC3000 delta AB	0.95993	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09315	1
Exp 36h	0.87412	0.589
Exp 60h	0.9507	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09723	1
Var 0h	0.86803	1
Var 12h I row2-row1	0.86488	0.363
Var 12h NI row2-row1	0.9782	0.906
Var 36h I row2-row1	0.98205	1
Var 36h NI row2-row1	1.06756	1
Var 60h I row2-row1	0.77154	0.292
Var 60h NI row2-row1	1.12037	1
Time course 0hI-0hNI	0.98857	0.994
Time course 12hI-12hNI	0.99578	1
Time course 36hI-36hNI	0.84728	0.089
Time course 60hI-60hNI	0.50917	0.006

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)	1.09834	0.482
transgenic ySAMdc/azygous control (breaker)	1.33001	0.178
transgenic ySAMdc/azygous control (red)	1.04047	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99278	0.517

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07384	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53299	0.084
Manapal/WT (break)	1.69852	0.123
Manapal/WT (red)	1.52881	0.222