Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12655	0.77
27DAP/17DAP	1.18378	0.832
39DAP/27DAP	0.89468	0.583
41DAP/39DAP	1.32905	0.359
42DAP/41DAP	1.06056	1
43DAP/42DAP	0.98427	0.925
47DAP/43DAP	1.04939	0.999
52DAP/47DAP	1.45967	0.41
57DAP/52DAP	0.97169	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36025	0.045
17DAP/reference	1.46691	0.011
27DAP/reference	1.28888	0.258
39DAP/reference	1.2807	0.077
41DAP/reference	1.59417	0.013
42DAP/reference	1.47259	0.001
43DAP/reference	1.19868	0.189
47DAP/reference	1.21156	0.052
52DAP/reference	1.27678	0.128
57DAP/reference	0.82157	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97242	0.613
27DAP/17DAP	0.99606	0.969
39DAP/27DAP	1.04129	0.603
41DAP/39DAP	1.0429	1
42DAP/41DAP	1.03134	0.947
43DAP/42DAP	1.01094	0.83
47DAP/43DAP	0.99896	1
52DAP/47DAP	1.01728	0.979
57DAP/52DAP	1.03162	0.874
57DAP/7DAP	1.0692	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96603	0.361
17DAP/reference	0.88601	0.024
27DAP/reference	0.89794	0.011
39DAP/reference	0.90084	0.015
41DAP/reference	0.93056	0.311
42DAP/reference	0.96702	0.458
43DAP/reference	0.88441	0.031
47DAP/reference	0.99561	1
52DAP/reference	0.85737	0.043
57DAP/reference	0.89137	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40325	0.038
17DAP/reference	2.19716	0.007
27DAP/reference	1.79078	0.019
39DAP/reference	2.5736	0.011
41DAP/reference	1.55273	0.018
42DAP/reference	1.47742	0.019
43DAP/reference	1.68776	0.065
47DAP/reference	1.2713	0.008
52DAP/reference	2.76055	0.006
57DAP/reference	1.91628	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02749	1
17DAP/reference	1.18335	0.269
27DAP/reference	0.99534	0.763
39DAP/reference	0.98432	0.591
41DAP/reference	0.90634	0.035
42DAP/reference	1.07576	0.692
43DAP/reference	1.0157	0.894
47DAP/reference	1.32865	0.03
52DAP/reference	0.96792	0.637
57DAP/reference	0.92423	0.339

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07814	0.966
26DAP/20DAP	0.95079	1
34DAP/26DAP	1.23736	0.819
51DAP/34DAP	0.91583	0.328
52DAP/51DAP	1.02223	0.821
53DAP/52DAP	1.10013	0.565
55DAP/53DAP	1.01661	0.964
57DAP/55DAP	0.95098	0.795
62DAP/57DAP	0.63262
68DAP/62DAP	0.88665	0.834
68DAP/14DAP	1.3145	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96054	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8337	0.29
Mature Green Tomato/Ripe Tomato	0.81016	0.165
Immature Eggplant/Mature Eggplant	1.37992	0.11
Ripe Pepper/Ripe Tomato	2.97381	0.258
Mature Eggplant/Ripe Tomato	2.11726	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96159	0.961
1-1-2/M82	0.88118	1
12-2/M82	1.33823	1
12-4/M82	0.86749	1
1-3/M82	0.95736	1
2-1-1/M82	1.08956	0.764
2-1/M82	0.90315	1
2-6/M82	1.07128	1
3-2/M82	0.89638
4-1-1/M82	1.01287	1
4-1/M82	0.79882	0.665
4-3-2/M82	0.89878	1
4-3/M82	0.84487	0.72
5-3/M82	0.94742	1
6-2/M82	0.8462	0.481
6-3/M82	0.99675	1
7-1/M82	1.21526	0.539
7-2/M82	1.0607	1
9-3-2/M82	0.9762	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00962	1
IL2-6/WTpooled	0.77417	0.473
IL7-5/WTpooled	1.18647	0.792
IL7-3/WTpooled	1.10422	1
IL12-4/WTpooled	1.11853	0.785
IL1-4/WTpooled	1.07715	1
WT/WTpooled	0.99018	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	0.96099	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99085	1
DC3000/delta hrp 6h	1.14639	1
DC3000/delta hrp 12h	1.15705	1
DC3000/delta hrp 24h	1.10714	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99668	1
DC3000 delta B/DC3000 delta AB	0.96781	0.693

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.6925	0.328
Exp 36h	0.78712	0.661
Exp 60h	0.52028	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94384	1
Var 0h	1.24285	0.594
Var 12h I row2-row1	1.06854	0.473
Var 12h NI row2-row1	1.09155	1
Var 36h I row2-row1	0.95498	1
Var 36h NI row2-row1	0.91371	0.478
Var 60h I row2-row1	1.26377	0.562
Var 60h NI row2-row1	1.27897	0.904
Time course 0hI-0hNI	1.05388	0.852
Time course 12hI-12hNI	1.01934	0.818
Time course 36hI-36hNI	0.94364	0.236
Time course 60hI-60hNI	1.12864	0.096

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)	1.42405	0.326
transgenic ySAMdc/azygous control (breaker)	1.43644	1
transgenic ySAMdc/azygous control (red)	0.98107	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98997	0.737

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.44333	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.75599	0.083
Manapal/WT (break)	2.47072	0.381
Manapal/WT (red)	1.49663	0.164