Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.10.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13045	0.912
27DAP/17DAP	0.78468	0.422
39DAP/27DAP	1.51335	0.672
41DAP/39DAP	1.01444	0.905
42DAP/41DAP	1.15714	0.903
43DAP/42DAP	1.07549	0.982
47DAP/43DAP	0.55542	0.06
52DAP/47DAP	1.15943	0.75
57DAP/52DAP	0.70853	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18991	0.522
17DAP/reference	0.6598	0.01
27DAP/reference	0.74548	0.034
39DAP/reference	0.99278	0.75
41DAP/reference	0.63307	0.011
42DAP/reference	1.54841	0.001
43DAP/reference	1.72184	0.007
47DAP/reference	1.02207	1
52DAP/reference	0.75934	0.028
57DAP/reference	1.0606	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18381	0.298
27DAP/17DAP	0.89483	0.195
39DAP/27DAP	1.24175	0.496
41DAP/39DAP	1.21326	0.146
42DAP/41DAP	0.84333	0.241
43DAP/42DAP	1.11011	0.446
47DAP/43DAP	1.18525	0.724
52DAP/47DAP	0.90636	0.507
57DAP/52DAP	1.04572	0.895
57DAP/7DAP	1.02383	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.05248	0.024
17DAP/reference	1.04849	0.754
27DAP/reference	2.186	0.006
39DAP/reference	1.73427	0.012
41DAP/reference	2.10917	0.019
42DAP/reference	2.88577	0.007
43DAP/reference	3.35741	0.007
47DAP/reference	3.39991	0.014
52DAP/reference	3.56298	0.007
57DAP/reference	1.62946	0.04

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11593	0.894
17DAP/reference	0.57008	0.003
27DAP/reference	1.22734	0.12
39DAP/reference	0.93523	0.274
41DAP/reference	0.74057	0.015
42DAP/reference	1.01498	1
43DAP/reference	1.27277	0.641
47DAP/reference	1.50892	0.128
52DAP/reference	0.64861	0.004
57DAP/reference	1.09341	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.11086	0.032
17DAP/reference	0.75614	0.144
27DAP/reference	1.28123	0.143
39DAP/reference	2.00971	0.008
41DAP/reference	1.54714	0.012
42DAP/reference	3.04694	0.01
43DAP/reference	3.27807	0.01
47DAP/reference	1.02119	0.731
52DAP/reference	1.44376	0.22
57DAP/reference	0.66753	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86164	0.733
26DAP/20DAP	0.91445	0.512
34DAP/26DAP	1.30798	1
51DAP/34DAP	1.21661	0.565
52DAP/51DAP	1.27287	0.367
53DAP/52DAP	0.86399	0.544
55DAP/53DAP	0.85178	0.489
57DAP/55DAP	1.01391	0.96
62DAP/57DAP	1.06843	1
68DAP/62DAP	1.13489	0.863
68DAP/14DAP	1.10079	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93761	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0529	1
Mature Green Tomato/Ripe Tomato	1.04681	1
Immature Eggplant/Mature Eggplant	6.49213	0.05
Ripe Pepper/Ripe Tomato	0.63025	0.293
Mature Eggplant/Ripe Tomato	1.29587	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1511	0.526
1-1-2/M82	1.005	1
12-2/M82	1.10585	1
12-4/M82	0.86549	0.282
1-3/M82	1.19771
2-1-1/M82	1.00137
2-1/M82	0.86605	0.74
2-6/M82	1.10165
3-2/M82	N/A	N/A
4-1-1/M82	3.26816
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	3.16122	0.268
5-3/M82	0.90265	1
6-2/M82	1.3865
6-3/M82	1.09262	1
7-1/M82	1.29292
7-2/M82	0.96132	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0579	0.493
IL2-6/WTpooled	1.09255	0.788
IL7-5/WTpooled	0.87171	1
IL7-3/WTpooled	1.18208	1
IL12-4/WTpooled	1.32801
IL1-4/WTpooled	1.00365	1
WT/WTpooled	0.98182	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	0.74732	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0668	0.846
DC3000/delta hrp 6h	1.087	1
DC3000/delta hrp 12h	1.04117	1
DC3000/delta hrp 24h	1.30777	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80549	0.105
DC3000 delta B/DC3000 delta AB	1.02616	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28306	1
Exp 36h	1.78388	0.409
Exp 60h	1.89797	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95971	1
Var 0h	1.18699	0.421
Var 12h I row2-row1	0.93581	0.627
Var 12h NI row2-row1	1.10816	1
Var 36h I row2-row1	0.97254	1
Var 36h NI row2-row1	6.39348	1
Var 60h I row2-row1	0.92969	0.374
Var 60h NI row2-row1	1.09382	1
Time course 0hI-0hNI	0.94478	0.665
Time course 12hI-12hNI	1.08049	0.544
Time course 36hI-36hNI	0.9785	0.559
Time course 60hI-60hNI	0.38897	0.006

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)	0.87786	0.301
transgenic ySAMdc/azygous control (breaker)	0.62106	0.173
transgenic ySAMdc/azygous control (red)	1.27752	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98145	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70722	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.32898	0.088
Manapal/WT (break)	0.76675	1
Manapal/WT (red)	2.0367	0.142