Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85522	0.486
27DAP/17DAP	1.2969	0.847
39DAP/27DAP	0.98021	0.769
41DAP/39DAP	1.53201	0.285
42DAP/41DAP	0.72421	0.397
43DAP/42DAP	0.98511	0.934
47DAP/43DAP	1.44407	0.442
52DAP/47DAP	1.04362	0.957
57DAP/52DAP	2.0107	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96059	0.513
17DAP/reference	0.88889	0.503
27DAP/reference	0.91636	0.444
39DAP/reference	0.94017	0.36
41DAP/reference	1.06882	0.058
42DAP/reference	1.2066	0.005
43DAP/reference	0.99082	0.82
47DAP/reference	1.0901	0.034
52DAP/reference	1.40648	0.062
57DAP/reference	1.05422	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97445	0.613
27DAP/17DAP	0.99037	0.854
39DAP/27DAP	1.00998	0.845
41DAP/39DAP	1.0969	0.469
42DAP/41DAP	0.92825	0.379
43DAP/42DAP	1.02074	0.627
47DAP/43DAP	0.98116	0.857
52DAP/47DAP	0.97422	0.839
57DAP/52DAP	0.99804	0.892
57DAP/7DAP	0.97798	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10538	0.793
17DAP/reference	0.91513	0.019
27DAP/reference	0.99787	0.698
39DAP/reference	1.01119	1
41DAP/reference	1.11495	1
42DAP/reference	0.8592	0.178
43DAP/reference	1.05155	0.873
47DAP/reference	1.0682	0.647
52DAP/reference	1.00487	0.74
57DAP/reference	1.23425	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3454	0.108
17DAP/reference	1.25738	0.063
27DAP/reference	1.23729	0.149
39DAP/reference	1.46233	0.036
41DAP/reference	1.53748	0.021
42DAP/reference	1.35707	0.04
43DAP/reference	1.40845	0.199
47DAP/reference	1.15805	0.048
52DAP/reference	1.21848	0.008
57DAP/reference	1.25629	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85301	0.147
17DAP/reference	1.2154	0.179
27DAP/reference	0.75043	0.049
39DAP/reference	1.18071	0.39
41DAP/reference	1.1911	0.425
42DAP/reference	1.41021	0.15
43DAP/reference	1.6119	0.077
47DAP/reference	1.00325	0.708
52DAP/reference	1.15649	0.312
57DAP/reference	1.46661	0.111

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99707	1
26DAP/20DAP	1.00912	1
34DAP/26DAP	1.09562	0.819
51DAP/34DAP	1.05145	0.706
52DAP/51DAP	0.97585	1
53DAP/52DAP	1.0346	0.845
55DAP/53DAP	0.95321	0.686
57DAP/55DAP	0.9599	0.799
62DAP/57DAP	1.03974	0.902
68DAP/62DAP	0.94617	0.747
68DAP/14DAP	0.9505	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85104	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92739	0.539
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.85165	0.366
Ripe Pepper/Ripe Tomato	0.69352	0.293
Mature Eggplant/Ripe Tomato	1.05105	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99173	0.961
1-1-2/M82	0.94917	0.958
12-2/M82	1.0269	1
12-4/M82	1.09233	1
1-3/M82	0.84679	0.378
2-1-1/M82	1.0931	0.764
2-1/M82	1.35997	0.345
2-6/M82	0.99975	1
3-2/M82	0.87525
4-1-1/M82	0.99036	1
4-1/M82	0.88716
4-3-2/M82	1.01399
4-3/M82	1.03933	1
5-3/M82	0.98002	1
6-2/M82	1.0419	1
6-3/M82	0.97268	1
7-1/M82	1.07359	0.578
7-2/M82	1.03482	1
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	0.75604
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98817
IL12-4/WTpooled	1.06459	1
IL1-4/WTpooled	0.86861	0.476
WT/WTpooled	1.05413	0.999

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	0.83304	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96672	1
DC3000/delta hrp 6h	0.95946	0.95
DC3000/delta hrp 12h	0.98487	1
DC3000/delta hrp 24h	1.00209	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12546	0.055
DC3000 delta B/DC3000 delta AB	1.0208	0.694

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97995	1
Exp 36h	1.04198	1
Exp 60h	0.9484	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98252	1
Var 0h	0.79998	0.457
Var 12h I row2-row1	1.42236	0.406
Var 12h NI row2-row1	0.96995	0.82
Var 36h I row2-row1	1.09254	1
Var 36h NI row2-row1	0.93787	0.645
Var 60h I row2-row1	1.16269	0.562
Var 60h NI row2-row1	1.11852	0.904
Time course 0hI-0hNI	0.99411	1
Time course 12hI-12hNI	0.95091	0.54
Time course 36hI-36hNI	0.91445	0.108
Time course 60hI-60hNI	0.84723	0.161

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)	1.20783	0.273
transgenic ySAMdc/azygous control (breaker)	1.3315	1
transgenic ySAMdc/azygous control (red)	0.89341	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	0.57149	0.238

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)	1.15321	1
Manapal/WT (red)	1.9038	0.413