Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.20.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31422	0.414
27DAP/17DAP	1.18932	0.833
39DAP/27DAP	0.72084	0.326
41DAP/39DAP	1.40059	0.229
42DAP/41DAP	1.15907	0.844
43DAP/42DAP	1.03776	1
47DAP/43DAP	1.19658	0.842
52DAP/47DAP	0.97679	0.806
57DAP/52DAP	0.94506	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97037	0.422
17DAP/reference	1.04705	0.229
27DAP/reference	1.03045	0.52
39DAP/reference	1.0256	0.534
41DAP/reference	0.98399	0.814
42DAP/reference	1.01087	1
43DAP/reference	1.00259	1
47DAP/reference	0.97612	0.392
52DAP/reference	0.9588	0.405
57DAP/reference	1.05062	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00518	1
27DAP/17DAP	1.00358	1
39DAP/27DAP	0.9947	1
41DAP/39DAP	1.00679	1
42DAP/41DAP	0.97901	0.746
43DAP/42DAP	1.00057	1
47DAP/43DAP	1.00452	0.957
52DAP/47DAP	1.0076	1
57DAP/52DAP	1.0118	0.997
57DAP/7DAP	0.99413	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90351	0.104
17DAP/reference	0.91228	0.025
27DAP/reference	0.81003	0.01
39DAP/reference	0.91807	0.064
41DAP/reference	0.88614	0.05
42DAP/reference	0.86917	0.077
43DAP/reference	0.85108	0.017
47DAP/reference	0.93961	0.383
52DAP/reference	0.82764	0.02
57DAP/reference	0.8739	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9263	0.176
17DAP/reference	0.93458	0.062
27DAP/reference	0.83898	0.071
39DAP/reference	0.96644	0.392
41DAP/reference	0.90813	0.25
42DAP/reference	0.83593	0.018
43DAP/reference	0.98355	0.657
47DAP/reference	0.93881	0.11
52DAP/reference	0.98492	0.469
57DAP/reference	0.94598	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85994	0.044
17DAP/reference	0.94373	0.286
27DAP/reference	0.91013	0.085
39DAP/reference	0.88609	0.021
41DAP/reference	0.87558	0.043
42DAP/reference	0.77469	0.016
43DAP/reference	0.83195	0.023
47DAP/reference	0.96957	0.434
52DAP/reference	0.84923	0.172
57DAP/reference	0.8841	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02849	0.916
26DAP/20DAP	1.06117	0.744
34DAP/26DAP	1.0125	1
51DAP/34DAP	1.02731	0.706
52DAP/51DAP	0.99457	1
53DAP/52DAP	0.97814	0.876
55DAP/53DAP	1.02305	0.893
57DAP/55DAP	0.81388	0.313
62DAP/57DAP	0.9428	0.681
68DAP/62DAP	1.13298	0.523
68DAP/14DAP	0.96293	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96915	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97265	0.783
Mature Green Tomato/Ripe Tomato	0.40264	0.03
Immature Eggplant/Mature Eggplant	1.24634	0.092
Ripe Pepper/Ripe Tomato	0.71021	1
Mature Eggplant/Ripe Tomato	0.91636	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00815	1
1-1-2/M82	1.08065
12-2/M82	0.99355	0.955
12-4/M82	1.02327	0.611
1-3/M82	0.93948	0.501
2-1-1/M82	0.97678	0.92
2-1/M82	N/A	N/A
2-6/M82	0.92901	1
3-2/M82	N/A	N/A
4-1-1/M82	1.13818	0.977
4-1/M82	0.98706
4-3-2/M82	0.99933
4-3/M82	1.01206	1
5-3/M82	1.03647	1
6-2/M82	1.00517	1
6-3/M82	0.96677	1
7-1/M82	0.98896
7-2/M82	1.01588
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.77808

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	1.02625	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96569	0.599
DC3000/delta hrp 6h	1.29343	1
DC3000/delta hrp 12h	0.97272	1
DC3000/delta hrp 24h	0.99539	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03345	0.408
DC3000 delta B/DC3000 delta AB	1.01668	0.687

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97845	1
Exp 36h	0.75712	0.699
Exp 60h	0.97614	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98314	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.1311	0.187
Var 12h NI row2-row1	0.93296	0.713
Var 36h I row2-row1	0.90075	0.805
Var 36h NI row2-row1	0.9304	0.645
Var 60h I row2-row1	1.6063	0.562
Var 60h NI row2-row1	1.25241	0.904
Time course 0hI-0hNI	1.06317	0.852
Time course 12hI-12hNI	1.03176	0.788
Time course 36hI-36hNI	1.12268	0.316
Time course 60hI-60hNI	1.19133	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)	1.05777	0.748
transgenic ySAMdc/azygous control (breaker)	1.03239	1
transgenic ySAMdc/azygous control (red)	1.04452	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94369	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83158	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17237	0.307
Manapal/WT (break)	0.87335	1
Manapal/WT (red)	0.99025	0.863