Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.1.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89638	0.357
27DAP/17DAP	1.1363	0.859
39DAP/27DAP	0.95202	0.67
41DAP/39DAP	1.15965	0.612
42DAP/41DAP	1.31521	0.786
43DAP/42DAP	0.8891	0.765
47DAP/43DAP	1.08567	0.856
52DAP/47DAP	1.50357	0.385
57DAP/52DAP	1.01471	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11334	0.197
17DAP/reference	0.99782	0.957
27DAP/reference	0.90811	0.04
39DAP/reference	0.93639	0.068
41DAP/reference	1.01082	0.808
42DAP/reference	1.10001	0.029
43DAP/reference	1.02188	0.787
47DAP/reference	1.01064	1
52DAP/reference	0.98633	0.564
57DAP/reference	0.85351	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9758	0.732
27DAP/17DAP	1.01766	1
39DAP/27DAP	1.00718	1
41DAP/39DAP	0.97199	0.973
42DAP/41DAP	0.96264	0.715
43DAP/42DAP	1.08325	0.446
47DAP/43DAP	1.00087	0.99
52DAP/47DAP	1.08561	0.766
57DAP/52DAP	0.92985	0.56
57DAP/7DAP	0.97074	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96731	0.27
17DAP/reference	0.93718	0.072
27DAP/reference	0.94522	0.022
39DAP/reference	0.85914	0.012
41DAP/reference	0.82638	0.015
42DAP/reference	0.80974	0.01
43DAP/reference	0.8478	0.017
47DAP/reference	0.86649	0.057
52DAP/reference	0.8597	0.013
57DAP/reference	0.88475	0.039

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1489	0.087
17DAP/reference	1.27171	0.007
27DAP/reference	1.1224	0.109
39DAP/reference	1.05306	0.746
41DAP/reference	1.02185	1
42DAP/reference	1.00169	0.655
43DAP/reference	1.23968	0.04
47DAP/reference	0.92969	0.071
52DAP/reference	1.09961	0.279
57DAP/reference	1.19928	0.494

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01366	0.882
17DAP/reference	1.0511	0.638
27DAP/reference	0.87067	0.038
39DAP/reference	0.93219	0.111
41DAP/reference	0.94317	0.132
42DAP/reference	1.04433	0.759
43DAP/reference	1.04965	0.667
47DAP/reference	0.95428	0.371
52DAP/reference	0.88558	0.132
57DAP/reference	0.96665	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.58758	0.966
26DAP/20DAP	1.02333	1
34DAP/26DAP	0.90038	0.596
51DAP/34DAP	1.10053	0.775
52DAP/51DAP	1.12046	0.722
53DAP/52DAP	1.12226	0.623
55DAP/53DAP	1.17167	0.382
57DAP/55DAP	1.07523	0.969
62DAP/57DAP	1.1853	0.029
68DAP/62DAP	0.9526	0.81
68DAP/14DAP	0.96215	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27217	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90706	0.418
Mature Green Tomato/Ripe Tomato	1.19093	0.437
Immature Eggplant/Mature Eggplant	0.75576	0.072
Ripe Pepper/Ripe Tomato	1.399	1
Mature Eggplant/Ripe Tomato	1.25033	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92266	0.934
1-1-2/M82	1.04295	1
12-2/M82	1.26553	1
12-4/M82	1.0156	1
1-3/M82	0.97333	1
2-1-1/M82	1.11888	0.689
2-1/M82	1.38094	N/A
2-6/M82	1.0272	0.695
3-2/M82	0.88712	N/A
4-1-1/M82	1.07287	1
4-1/M82	1.14859	N/A
4-3-2/M82	1.07679	1
4-3/M82	1.13378	1
5-3/M82	0.9379	1
6-2/M82	1.00667	1
6-3/M82	0.99363	1
7-1/M82	0.91741	1
7-2/M82	1.07815	1
9-3-2/M82	0.95937	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13993	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.76116	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.95614	0.415
WT/WTpooled	N/A	N/A

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	1.09764	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03114	0.921
DC3000/delta hrp 6h	0.97627	0.95
DC3000/delta hrp 12h	1.01506	1
DC3000/delta hrp 24h	0.94649	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08454	0.355
DC3000 delta B/DC3000 delta AB	1.09551	0.386

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11639	1
Exp 36h	0.79371	0.623
Exp 60h	0.83047	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99569	1
Var 0h	1.04627	1
Var 12h I row2-row1	1.01091	0.795
Var 12h NI row2-row1	1.10155	1
Var 36h I row2-row1	1.16987	0.298
Var 36h NI row2-row1	0.84047	0.478
Var 60h I row2-row1	0.92886	0.832
Var 60h NI row2-row1	0.87987	0.292
Time course 0hI-0hNI	1.06009	0.451
Time course 12hI-12hNI	0.98572	0.931
Time course 36hI-36hNI	1.06714	0.401
Time course 60hI-60hNI	1.32188	0.019

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)	1.08058	0.654
transgenic ySAMdc/azygous control (breaker)	0.96949	1
transgenic ySAMdc/azygous control (red)	1.14889	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03032	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00462	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1979	0.105
Manapal/WT (break)	0.96997	1
Manapal/WT (red)	0.89302	0.424