Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	4.3133	0.019
27DAP/17DAP	1.20064	0.833
39DAP/27DAP	1.13949	0.699
41DAP/39DAP	0.88525	0.543
42DAP/41DAP	1.87144	0.026
43DAP/42DAP	0.77628	0.705
47DAP/43DAP	1.47849	0.444
52DAP/47DAP	0.94086	0.779
57DAP/52DAP	1.44828	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87847	0.231
17DAP/reference	1.03269	1
27DAP/reference	0.91699	0.525
39DAP/reference	0.81598	0.261
41DAP/reference	1.04472	1
42DAP/reference	0.85252	0.078
43DAP/reference	0.90478	0.448
47DAP/reference	1.06043	0.963
52DAP/reference	1.2423	0.476
57DAP/reference	0.9891	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.08432	0.036
27DAP/17DAP	1.19202	0.367
39DAP/27DAP	1.23801	0.147
41DAP/39DAP	0.92081	0.764
42DAP/41DAP	1.27993	0.116
43DAP/42DAP	1.3875	0.017
47DAP/43DAP	0.81644	0.063
52DAP/47DAP	1.2277	0.444
57DAP/52DAP	0.80105	0.176
57DAP/7DAP	2.02489	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79346	0.078
17DAP/reference	1.18851	0.361
27DAP/reference	1.1271	0.246
39DAP/reference	1.3673	0.006
41DAP/reference	0.99103	0.646
42DAP/reference	1.1171	0.534
43DAP/reference	1.13819	0.241
47DAP/reference	1.09255	0.948
52DAP/reference	0.91535	0.137
57DAP/reference	0.67668	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63537	0.008
17DAP/reference	0.89544	0.474
27DAP/reference	1.22924	0.629
39DAP/reference	0.83677	0.202
41DAP/reference	1.12525	0.862
42DAP/reference	1.15666	0.359
43DAP/reference	0.90225	0.328
47DAP/reference	0.92408	0.227
52DAP/reference	1.0278	0.666
57DAP/reference	1.0494	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63537	0.032
17DAP/reference	0.85725	0.275
27DAP/reference	1.01978	0.805
39DAP/reference	1.0257	0.987
41DAP/reference	1.17541	0.621
42DAP/reference	1.31242	0.039
43DAP/reference	1.35386	0.066
47DAP/reference	1.24134	0.543
52DAP/reference	0.96315	0.65
57DAP/reference	1.40212	0.094

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.29136	0.14
26DAP/20DAP	1.02293	1
34DAP/26DAP	0.8863	0.795
51DAP/34DAP	1.19587
52DAP/51DAP	1.19061	0.873
53DAP/52DAP	1.03192	0.938
55DAP/53DAP	1.08341	1
57DAP/55DAP	0.86557	0.577
62DAP/57DAP	1.05048	1
68DAP/62DAP	0.69515	0.152
68DAP/14DAP	1.4874	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.90716	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.30936	0.166
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.39793
Mature Eggplant/Ripe Tomato	0.09797	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.30776	0.877
1-1-2/M82	1.38429	1
12-2/M82	1.12426	1
12-4/M82	1.31689	1
1-3/M82	0.61622
2-1-1/M82	1.24178	0.439
2-1/M82	N/A	N/A
2-6/M82	0.46127	0.501
3-2/M82	1.88165	0.549
4-1-1/M82	2.07598	0.968
4-1/M82	2.75988	0.853
4-3-2/M82	1.42071
4-3/M82	1.10237	1
5-3/M82	0.72527	1
6-2/M82	0.45292	0.444
6-3/M82	14.2962	0.971
7-1/M82	1.41623
7-2/M82	0.59836	0.599
9-3-2/M82	0.77797	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.19809
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8609	1
IL12-4/WTpooled	1.1461	1
IL1-4/WTpooled	1.02153	1
WT/WTpooled	1.10308	0.89

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	0.8592	0.197

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85566	0.839
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.60913	1
DC3000/delta hrp 24h	0.9576	0.736

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	N/A	N/A
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	1.02566	1
Var 0h	0.70445	0.98
Var 12h I row2-row1	1.19989	0.58
Var 12h NI row2-row1	0.90538	0.82
Var 36h I row2-row1	1.56529	0.489
Var 36h NI row2-row1	1.03972	1
Var 60h I row2-row1	0.97646	1
Var 60h NI row2-row1	1.06566	0.904
Time course 0hI-0hNI	1.00405	1
Time course 12hI-12hNI	1.1749	0.044
Time course 36hI-36hNI	0.91439	0.241
Time course 60hI-60hNI	0.78653	0.047

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.35447	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.89552	0.133