Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0694	0.893
27DAP/17DAP	1.01505	1
39DAP/27DAP	0.97563	0.84
41DAP/39DAP	1.16635	0.742
42DAP/41DAP	0.95678	1
43DAP/42DAP	1.00027	0.937
47DAP/43DAP	0.89354	0.603
52DAP/47DAP	1.14247	0.787
57DAP/52DAP	1.53596	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01614	0.994
17DAP/reference	1.09109	0.229
27DAP/reference	0.83435	0.257
39DAP/reference	1.13921	0.286
41DAP/reference	1.30504	0.171
42DAP/reference	1.0606	0.656
43DAP/reference	1.08384	0.646
47DAP/reference	1.1416	0.119
52DAP/reference	0.88319	0.244
57DAP/reference	0.89121	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06553	0.662
27DAP/17DAP	0.95742	0.878
39DAP/27DAP	0.94481	0.737
41DAP/39DAP	0.94841	0.861
42DAP/41DAP	1.08289	0.727
43DAP/42DAP	1.2727	0.147
47DAP/43DAP	1.06058	0.749
52DAP/47DAP	1.06067	0.892
57DAP/52DAP	1.39878	0.318
57DAP/7DAP	1.43484	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3737	0.025
17DAP/reference	1.14104	0.361
27DAP/reference	1.064	0.664
39DAP/reference	0.74044	0.011
41DAP/reference	0.91645	0.326
42DAP/reference	0.88313	0.04
43DAP/reference	1.06048	0.511
47DAP/reference	1.07313	0.854
52DAP/reference	1.0151	0.941
57DAP/reference	0.9571	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09642	0.695
17DAP/reference	0.9916	0.642
27DAP/reference	0.95124	0.483
39DAP/reference	0.95428	0.455
41DAP/reference	1.28266	0.096
42DAP/reference	0.99399	0.594
43DAP/reference	1.3388	0.222
47DAP/reference	1.24292	0.413
52DAP/reference	1.36203	0.023
57DAP/reference	1.25001	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13178	0.366
17DAP/reference	1.01517	0.87
27DAP/reference	1.17367	0.149
39DAP/reference	0.84185	0.101
41DAP/reference	0.81889	0.107
42DAP/reference	0.97517	0.671
43DAP/reference	0.96528	0.523
47DAP/reference	0.98495	0.61
52DAP/reference	0.63808	0.06
57DAP/reference	0.82461	0.093

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.74937
26DAP/20DAP	0.95296	1
34DAP/26DAP	1.23642	0.819
51DAP/34DAP	1.14482	0.535
52DAP/51DAP	1.09779	0.295
53DAP/52DAP	0.8112	0.514
55DAP/53DAP	1.13049	0.722
57DAP/55DAP	1.078	1
62DAP/57DAP	1.1728	0.678
68DAP/62DAP	1.15625	0.858
68DAP/14DAP	0.39999

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.95851	0.038

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	2.02118
Mature Eggplant/Ripe Tomato	0.31578

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	1.35208
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	0.93768	0.243
IL2-6/WTpooled	0.99222	1
IL7-5/WTpooled	0.85551	1
IL7-3/WTpooled	1.01921	1
IL12-4/WTpooled	1.24149	0.503
IL1-4/WTpooled	0.96857	0.834
WT/WTpooled	0.96942	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	0.89616	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01646	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92181	0.513
DC3000 delta B/DC3000 delta AB	0.7156	0.051

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	1.08194	1
Var 0h	1.16655	0.98
Var 12h I row2-row1	0.88257	0.338
Var 12h NI row2-row1	1.06169	1
Var 36h I row2-row1	1.12989	1
Var 36h NI row2-row1	1.07173	1
Var 60h I row2-row1	0.93445	0.306
Var 60h NI row2-row1	0.96429	1
Time course 0hI-0hNI	1.02241	0.867
Time course 12hI-12hNI	0.95912	0.698
Time course 36hI-36hNI	0.98021	0.476
Time course 60hI-60hNI	0.947	0.646

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)	0.75361	1

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	1.23122	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)	1.71861	0.183
Manapal/WT (red)	1.12562	1