Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00766	0.839
27DAP/17DAP	1.43376	0.772
39DAP/27DAP	1.30525	0.876
41DAP/39DAP	1.37962	0.833
42DAP/41DAP	1.04898	1
43DAP/42DAP	1.08279	1
47DAP/43DAP	1.34904	0.68
52DAP/47DAP	1.19015	0.763
57DAP/52DAP	1.15101	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05436	0.76
17DAP/reference	1.17495	0.127
27DAP/reference	0.97869	0.683
39DAP/reference	1.15845	0.224
41DAP/reference	1.07886	0.171
42DAP/reference	1.12424	0.731
43DAP/reference	1.29863	0.617
47DAP/reference	1.49693	0.101
52DAP/reference	1.18323	0.096
57DAP/reference	0.97003	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.57135	0.213
27DAP/17DAP	0.99741	0.919
39DAP/27DAP	1.27063	0.388
41DAP/39DAP	0.9567	0.893
42DAP/41DAP	1.01073	0.882
43DAP/42DAP	1.08809	0.788
47DAP/43DAP	1.08799	0.88
52DAP/47DAP	1.36826	0.395
57DAP/52DAP	1.08457	0.892
57DAP/7DAP	3.42031	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90245	0.095
17DAP/reference	1.08952	0.134
27DAP/reference	1.14413	0.088
39DAP/reference	0.92727	0.034
41DAP/reference	0.81204	0.029
42DAP/reference	0.80567	0.04
43DAP/reference	0.81138	0.072
47DAP/reference	1.05834	0.822
52DAP/reference	0.75189	0.046
57DAP/reference	0.82224	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05975	0.979
17DAP/reference	0.90361	0.447
27DAP/reference	1.14129	0.488
39DAP/reference	1.14137	0.17
41DAP/reference	1.09709	0.573
42DAP/reference	1.20073	0.332
43DAP/reference	1.077	0.719
47DAP/reference	0.88126	0.123
52DAP/reference	1.20439	0.343
57DAP/reference	1.10158	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08503	0.481
17DAP/reference	1.0062	1
27DAP/reference	1.03429	0.425
39DAP/reference	0.97478	0.504
41DAP/reference	1.06659	0.455
42DAP/reference	1.02251	0.877
43DAP/reference	1.04862	0.79
47DAP/reference	1.03343	1
52DAP/reference	1.33596	0.278
57DAP/reference	1.09869	0.324

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30279	0.407
26DAP/20DAP	1.32802	0.24
34DAP/26DAP	1.55054	1
51DAP/34DAP	0.99858	0.993
52DAP/51DAP	1.78448	0.454
53DAP/52DAP	1.05688	0.961
55DAP/53DAP	0.97268	0.796
57DAP/55DAP	1.32889	0.125
62DAP/57DAP	1.04566	1
68DAP/62DAP	0.90058
68DAP/14DAP	0.86884	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40288	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.51882	0.022
Immature Eggplant/Mature Eggplant	1.05417	1
Ripe Pepper/Ripe Tomato	0.15947	0.224
Mature Eggplant/Ripe Tomato	0.25843	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.29201	1
1-1-2/M82	1.15611	1
12-2/M82	1.41919	1
12-4/M82	1.31285
1-3/M82	2.2011	0.479
2-1-1/M82	1.08086	0.764
2-1/M82	0.68129
2-6/M82	0.41048	0.501
3-2/M82	1.6881	0.84
4-1-1/M82	0.75069	1
4-1/M82	0.93278
4-3-2/M82	0.38858
4-3/M82	0.69472	0.72
5-3/M82	1.02919	1
6-2/M82	0.76435	1
6-3/M82	1.03538	1
7-1/M82	0.75704	0.509
7-2/M82	0.66453	0.796
9-3-2/M82	0.63864

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91464	1
IL2-6/WTpooled	0.99285	1
IL7-5/WTpooled	0.84744
IL7-3/WTpooled	1.17383	1
IL12-4/WTpooled	1.38953	0.737
IL1-4/WTpooled	1.47256	1
WT/WTpooled	0.95786	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	0.88203	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17245	0.257
DC3000/delta hrp 6h	0.92462	0.95
DC3000/delta hrp 12h	1.30475	1
DC3000/delta hrp 24h	1.02364	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17626	0.16
DC3000 delta B/DC3000 delta AB	1.06902	0.565

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.46721	1
Exp 36h	1.42968	0.349
Exp 60h	1.63264	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0007	1
Var 0h	1.11212
Var 12h I row2-row1	1.31374	0.544
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.9188	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.51377	0.418
Time course 0hI-0hNI	1.00265	0.777
Time course 12hI-12hNI	0.97767	0.874
Time course 36hI-36hNI	1.09111	0.513
Time course 60hI-60hNI	1.84338	0.01

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)	1.0196	0.863
transgenic ySAMdc/azygous control (breaker)	0.71319	0.251
transgenic ySAMdc/azygous control (red)	0.80003	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02951	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82441	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95691	1
Manapal/WT (break)	1.10415	1
Manapal/WT (red)	1.12587	1