Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93121	0.689
27DAP/17DAP	0.92476	0.945
39DAP/27DAP	0.81444	0.378
41DAP/39DAP	1.14212	0.78
42DAP/41DAP	1.2231	0.802
43DAP/42DAP	0.97868	0.932
47DAP/43DAP	0.80175	0.41
52DAP/47DAP	1.37505	0.596
57DAP/52DAP	0.74279	0.778

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79014	0.073
17DAP/reference	0.74931	0.06
27DAP/reference	0.93463	0.552
39DAP/reference	0.76526	0.054
41DAP/reference	0.64617	0.039
42DAP/reference	0.89246	0.024
43DAP/reference	0.94227	0.538
47DAP/reference	0.93099	0.174
52DAP/reference	1.02111	0.912
57DAP/reference	1.08604	0.105

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16308	0.801
27DAP/17DAP	0.98761	0.943
39DAP/27DAP	0.71658	0.035
41DAP/39DAP	0.97365	1
42DAP/41DAP	0.80521	0.453
43DAP/42DAP	0.55782	0.105
47DAP/43DAP	1.66706	0.88
52DAP/47DAP	0.65578
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.04224	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92314	0.203
17DAP/reference	1.04774	0.971
27DAP/reference	1.04036	0.804
39DAP/reference	0.96849	0.474
41DAP/reference	0.83048	0.062
42DAP/reference	0.78389	0.042
43DAP/reference	0.89476	0.166
47DAP/reference	0.97576	0.671
52DAP/reference	0.87336	0.097
57DAP/reference	0.82143	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83884	0.11
17DAP/reference	0.6374	0.004
27DAP/reference	0.82557	0.058
39DAP/reference	0.98309	0.603
41DAP/reference	0.92738	0.194
42DAP/reference	0.81889	0.018
43DAP/reference	0.95514	0.438
47DAP/reference	0.6751	0.011
52DAP/reference	0.76199	0.003
57DAP/reference	0.64092	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88141	0.074
17DAP/reference	0.94937	0.528
27DAP/reference	0.9304	0.27
39DAP/reference	1.05578	0.67
41DAP/reference	0.97498	0.618
42DAP/reference	0.8309	0.087
43DAP/reference	0.90156	0.319
47DAP/reference	0.77255	0.054
52DAP/reference	1.32115	0.714
57DAP/reference	1.0682	0.428

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.42668	0.878
26DAP/20DAP	14.1453
34DAP/26DAP	3.77543	1
51DAP/34DAP	0.89207
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.29712	0.806
55DAP/53DAP	N/A	N/A
57DAP/55DAP	1.03354	0.968
62DAP/57DAP	1.19096	0.133
68DAP/62DAP	1.4017	0.091
68DAP/14DAP	1.53043	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44406

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.65094
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.20371
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.99445	1
IL2-6/WTpooled	0.65463	1
IL7-5/WTpooled	0.98374	1
IL7-3/WTpooled	0.85544	0.31
IL12-4/WTpooled	1.29461	0.673
IL1-4/WTpooled	0.93891	0.834
WT/WTpooled	1.02992	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10695	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.33835
DC3000/delta hrp 24h	0.91434	0.513

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	N/A	N/A
Exp 36h	3.77865	0.693
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.07179	0.654
transgenic ySAMdc/azygous control (breaker)	1.38627	0.178
transgenic ySAMdc/azygous control (red)	1.0284	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0167	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02306	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89753	1
Manapal/WT (break)	0.98892	1
Manapal/WT (red)	1.04694	1