Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86622	0.395
27DAP/17DAP	1.06375	0.905
39DAP/27DAP	0.94393	0.652
41DAP/39DAP	1.27724	0.38
42DAP/41DAP	1.00581	1
43DAP/42DAP	1.07492	0.993
47DAP/43DAP	1.07509	0.584
52DAP/47DAP	1.08415	0.821
57DAP/52DAP	1.0288	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95476	0.336
17DAP/reference	1.04629	0.033
27DAP/reference	0.98952	0.741
39DAP/reference	1.04757	0.236
41DAP/reference	0.98452	0.814
42DAP/reference	0.92743	0.003
43DAP/reference	1.03407	0.569
47DAP/reference	0.95814	0.09
52DAP/reference	1.01261	1
57DAP/reference	0.95629	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14137	0.728
27DAP/17DAP	1.00755	0.943
39DAP/27DAP	1.08979	1
41DAP/39DAP	1.02639	1
42DAP/41DAP	1.09267	0.539
43DAP/42DAP	1.07883	0.83
47DAP/43DAP	1.02685	1
52DAP/47DAP	1.08782	0.819
57DAP/52DAP	1.48445	0.081
57DAP/7DAP	1.2566	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30312	0.074
17DAP/reference	1.69357	0.006
27DAP/reference	1.63719	0.006
39DAP/reference	1.71764	0.007
41DAP/reference	1.62639	0.015
42DAP/reference	1.93661	0.006
43DAP/reference	1.83815	0.006
47DAP/reference	1.19998	0.36
52DAP/reference	1.6722	0.007
57DAP/reference	1.68863	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88671	0.277
17DAP/reference	0.76197	0.023
27DAP/reference	0.84205	0.054
39DAP/reference	0.93634	0.298
41DAP/reference	0.95982	0.451
42DAP/reference	0.85708	0.042
43DAP/reference	0.97575	0.569
47DAP/reference	0.93464	0.178
52DAP/reference	1.05472	0.498
57DAP/reference	0.97826	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27911	0.103
17DAP/reference	0.99889	0.792
27DAP/reference	1.31551	0.027
39DAP/reference	1.21629	0.097
41DAP/reference	1.39016	0.062
42DAP/reference	1.6489	0.043
43DAP/reference	1.66704	0.047
47DAP/reference	0.8968	0.306
52DAP/reference	1.44681	0.132
57DAP/reference	1.26702	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96291	1
26DAP/20DAP	1.20717	0.629
34DAP/26DAP	1.02928	1
51DAP/34DAP	0.9102	0.64
52DAP/51DAP	1.27914	0.304
53DAP/52DAP	1.17217	0.58
55DAP/53DAP	1.72233	0.368
57DAP/55DAP	0.73683	0.234
62DAP/57DAP	1.04018	1
68DAP/62DAP	1.49273	0.589
68DAP/14DAP	1.07892	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86809	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89907	0.426
Mature Green Tomato/Ripe Tomato	0.8556	0.119
Immature Eggplant/Mature Eggplant	0.96504	0.651
Ripe Pepper/Ripe Tomato	1.48268	1
Mature Eggplant/Ripe Tomato	1.57394	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.74277	0.69
1-1-2/M82	0.80867
12-2/M82	N/A	N/A
12-4/M82	0.76878	0.319
1-3/M82	1.06994	1
2-1-1/M82	1.3495
2-1/M82	0.90798
2-6/M82	1.10273	0.695
3-2/M82	1.0544
4-1-1/M82	1.26365
4-1/M82	0.81661
4-3-2/M82	1.13055
4-3/M82	1.03147
5-3/M82	0.96863	1
6-2/M82	N/A	N/A
6-3/M82	1.27376
7-1/M82	N/A	N/A
7-2/M82	1.57126	1
9-3-2/M82	0.87085	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71568	0.243
IL2-6/WTpooled	1.67763	0.419
IL7-5/WTpooled	1.48559	1
IL7-3/WTpooled	0.83717	0.31
IL12-4/WTpooled	1.17478	0.785
IL1-4/WTpooled	1.19143	1
WT/WTpooled	0.92595	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	0.933	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99115	1
DC3000/delta hrp 6h	1.00161	0.95
DC3000/delta hrp 12h	1.17324	1
DC3000/delta hrp 24h	1.15599	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	5.68822
DC3000 delta B/DC3000 delta AB	1.88837	0.084

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03454	1
Exp 36h	0.92824	0.623
Exp 60h	0.95987	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99898	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.01391
Var 12h NI row2-row1	1.37015	0.266
Var 36h I row2-row1	0.86638	1
Var 36h NI row2-row1	0.78211	0.549
Var 60h I row2-row1	0.84858	0.582
Var 60h NI row2-row1	0.87096	0.932
Time course 0hI-0hNI	0.94294	0.577
Time course 12hI-12hNI	1.11876	0.786
Time course 36hI-36hNI	1.15755	0.147
Time course 60hI-60hNI	1.99307	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)	0.98239	0.614
transgenic ySAMdc/azygous control (breaker)	0.81641	0.251
transgenic ySAMdc/azygous control (red)	0.95034	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07214	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69689	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78849	1
Manapal/WT (break)	0.95546	1
Manapal/WT (red)	0.96052	0.728