Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.65625	0.094
27DAP/17DAP	1.5951	0.36
39DAP/27DAP	1.01604	1
41DAP/39DAP	1.09612	0.844
42DAP/41DAP	1.19837	0.912
43DAP/42DAP	1.06283	1
47DAP/43DAP	1.72736	0.469
52DAP/47DAP	0.81948	0.54
57DAP/52DAP	1.16245	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	0.36933
27DAP/reference	0.76003	0.083
39DAP/reference	0.45524
41DAP/reference	0.65689
42DAP/reference	0.81166	0.029
43DAP/reference	0.6361
47DAP/reference	0.93907	0.207
52DAP/reference	0.57447	0.047
57DAP/reference	1.3591	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.64566	0.192
27DAP/17DAP	1.1403	0.664
39DAP/27DAP	1.563	0.308
41DAP/39DAP	0.85992	0.63
42DAP/41DAP	1.56392	0.263
43DAP/42DAP	1.00401	0.96
47DAP/43DAP	0.77614	0.023
52DAP/47DAP	1.17872	0.57
57DAP/52DAP	0.98946	0.7
57DAP/7DAP	2.2768	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90738	0.168
17DAP/reference	0.84986	0.017
27DAP/reference	0.73949	0.013
39DAP/reference	0.56265	0.012
41DAP/reference	0.48579	0.009
42DAP/reference	0.5061	0.01
43DAP/reference	0.62672	0.013
47DAP/reference	0.97723	0.671
52DAP/reference	0.80876	0.083
57DAP/reference	0.85183	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91809	0.487
17DAP/reference	0.77658	0.031
27DAP/reference	0.71328	0.022
39DAP/reference	0.72262	0.071
41DAP/reference	0.67735	0.018
42DAP/reference	0.70995	0.019
43DAP/reference	0.71501	0.008
47DAP/reference	0.66228	0.007
52DAP/reference	0.76654	0.011
57DAP/reference	0.73736	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71001	0.028
17DAP/reference	0.78141	0.08
27DAP/reference	0.768	0.024
39DAP/reference	0.82314	0.092
41DAP/reference	0.99485	0.682
42DAP/reference	1.03597	0.692
43DAP/reference	0.92628	0.384
47DAP/reference	0.97435	0.509
52DAP/reference	1.13323	0.398
57DAP/reference	1.04794	0.827

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.38124	0.945
26DAP/20DAP	1.39469	0.334
34DAP/26DAP	2.00006	1
51DAP/34DAP	0.90578	0.611
52DAP/51DAP	1.08436	1
53DAP/52DAP	1.16212	1
55DAP/53DAP	0.97477	0.864
57DAP/55DAP	N/A	N/A
62DAP/57DAP	0.83654	0.088
68DAP/62DAP	1.02651	0.914
68DAP/14DAP	2.09429	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.49317	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58855	0.175
Mature Green Tomato/Ripe Tomato	1.18195	0.523
Immature Eggplant/Mature Eggplant	1.97877	0.05
Ripe Pepper/Ripe Tomato	0.68261	0.293
Mature Eggplant/Ripe Tomato	0.47474	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99129
1-1-2/M82	1.13494	1
12-2/M82	0.84823	0.955
12-4/M82	0.91823	1
1-3/M82	1.44346	0.26
2-1-1/M82	1.02203	1
2-1/M82	0.94188	0.74
2-6/M82	1.1618
3-2/M82	1.21735
4-1-1/M82	1.02364
4-1/M82	1.33824	1
4-3-2/M82	0.92938	0.487
4-3/M82	1.51507	0.268
5-3/M82	0.97081	1
6-2/M82	1.00776	1
6-3/M82	1.0945	1
7-1/M82	0.95698	1
7-2/M82	1.16923	1
9-3-2/M82	1.21858	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0252	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.07299	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.06167	1
WT/WTpooled	N/A	N/A

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	1.25328	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88689	1
DC3000/delta hrp 6h	0.67034	0.637
DC3000/delta hrp 12h	1.08899	1
DC3000/delta hrp 24h	1.17967	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	1.51368	0.228
Exp 36h	2.41412	0.326
Exp 60h	1.53414	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.86612	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.04568	0.443
Var 12h NI row2-row1	0.728
Var 36h I row2-row1	1.17866	1
Var 36h NI row2-row1	1.3812	1
Var 60h I row2-row1	0.64042
Var 60h NI row2-row1	7.12646	0.904
Time course 0hI-0hNI	0.95127	0.858
Time course 12hI-12hNI	1.05719	1
Time course 36hI-36hNI	1.01531	0.644
Time course 60hI-60hNI	0.645	0.081

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)	0.90513	0.614
transgenic ySAMdc/azygous control (breaker)	1.28569	0.178
transgenic ySAMdc/azygous control (red)	0.97226	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.26064	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88301	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.89569	0.09
Manapal/WT (break)	1.01467	1
Manapal/WT (red)	0.73608	0.184