Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.4.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13629	0.485
27DAP/17DAP	0.85112	0.604
39DAP/27DAP	1.0512	1
41DAP/39DAP	1.00518	0.973
42DAP/41DAP	1.23093	0.737
43DAP/42DAP	1.08605	1
47DAP/43DAP	1.26411	0.246
52DAP/47DAP	1.01209	0.907
57DAP/52DAP	1.20115	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87115	0.111
17DAP/reference	0.87709	0.097
27DAP/reference	0.97186	0.642
39DAP/reference	0.93353	0.37
41DAP/reference	0.96974	0.667
42DAP/reference	0.9178	0.12
43DAP/reference	1.02212	0.928
47DAP/reference	1.0648	0.773
52DAP/reference	1.0724	0.633
57DAP/reference	1.12659	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31047	0.062
27DAP/17DAP	0.7966	0.121
39DAP/27DAP	0.97116	0.732
41DAP/39DAP	0.89595	0.53
42DAP/41DAP	1.31375	0.124
43DAP/42DAP	1.62332	0.056
47DAP/43DAP	0.88631	0.239
52DAP/47DAP	1.13062	0.568
57DAP/52DAP	0.82321	0.199
57DAP/7DAP	0.96163	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90729	0.183
17DAP/reference	0.79968	0.011
27DAP/reference	0.9366	0.185
39DAP/reference	0.98998	0.552
41DAP/reference	0.93156	0.146
42DAP/reference	1.05061	1
43DAP/reference	1.16435	0.118
47DAP/reference	1.0058	1
52DAP/reference	0.96805	0.435
57DAP/reference	0.83594	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02735	0.993
17DAP/reference	0.92121	0.347
27DAP/reference	0.9745	0.501
39DAP/reference	0.98826	0.603
41DAP/reference	0.96356	0.459
42DAP/reference	0.90348	0.108
43DAP/reference	0.99074	0.646
47DAP/reference	0.92744	0.227
52DAP/reference	0.89948	0.034
57DAP/reference	0.94654	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1216	0.311
17DAP/reference	1.04259	0.675
27DAP/reference	1.01776	1
39DAP/reference	0.93489	0.147
41DAP/reference	1.15896	0.089
42DAP/reference	1.08809	0.759
43DAP/reference	1.19706	0.275
47DAP/reference	0.95543	0.335
52DAP/reference	0.88187	0.424
57DAP/reference	1.2326	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05422	0.966
26DAP/20DAP	0.8576	0.512
34DAP/26DAP	0.98625	0.991
51DAP/34DAP	1.53955	0.044
52DAP/51DAP	0.61006	0.151
53DAP/52DAP	1.50998	0.032
55DAP/53DAP	1.14002	0.645
57DAP/55DAP	1.32647	0.149
62DAP/57DAP	1.02383	1
68DAP/62DAP	0.96215	0.834
68DAP/14DAP	1.62144	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18468	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.35459	0.078
Mature Green Tomato/Ripe Tomato	1.91441	0.017
Immature Eggplant/Mature Eggplant	0.69821	0.075
Ripe Pepper/Ripe Tomato	3.05082	1
Mature Eggplant/Ripe Tomato	3.04334	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19405	0.742
1-1-2/M82	1.06871	1
12-2/M82	0.86813	0.955
12-4/M82	1.0235	1
1-3/M82	1.10357	1
2-1-1/M82	0.93254	1
2-1/M82	0.81559	0.322
2-6/M82	1.24703	0.405
3-2/M82	1.02647
4-1-1/M82	1.0025	1
4-1/M82	N/A	N/A
4-3-2/M82	1.30406	0.508
4-3/M82	1.17641	1
5-3/M82	0.93397	1
6-2/M82	1.06044
6-3/M82	1.0336	1
7-1/M82	0.98033
7-2/M82	0.92542
9-3-2/M82	1.38267	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0861	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86723	0.31
IL12-4/WTpooled	0.97836	1
IL1-4/WTpooled	0.88309
WT/WTpooled	1.11698	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	1.03541	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91858	0.868
DC3000/delta hrp 6h	1.16418	1
DC3000/delta hrp 12h	1.01265	1
DC3000/delta hrp 24h	0.85745	0.134

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8062	0.141
DC3000 delta B/DC3000 delta AB	0.8268	0.134

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0504	1
Exp 36h	0.79765	0.661
Exp 60h	0.80027	0.664

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)	0.85352	0.236
transgenic ySAMdc/azygous control (breaker)	1.44236	0.248
transgenic ySAMdc/azygous control (red)	1.00866	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02756	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.64495	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.51861	0.084
Manapal/WT (break)	1.44628	0.123
Manapal/WT (red)	1.46674	0.133