Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.2.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0955	0.786
27DAP/17DAP	1.54109	0.435
39DAP/27DAP	0.91772	0.573
41DAP/39DAP	1.33106	0.432
42DAP/41DAP	1.12672	0.856
43DAP/42DAP	1.09328	0.974
47DAP/43DAP	1.35247	0.172
52DAP/47DAP	0.95674	0.856
57DAP/52DAP	0.86018	0.81

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7728	0.125
17DAP/reference	0.90197	0.12
27DAP/reference	1.30498	0.17
39DAP/reference	1.15573	0.174
41DAP/reference	1.08744	0.265
42DAP/reference	1.07124	0.523
43DAP/reference	1.04589	0.838
47DAP/reference	1.08666	0.773
52DAP/reference	1.02304	1
57DAP/reference	1.03943	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12389	0.312
27DAP/17DAP	0.78596	0.724
39DAP/27DAP	1.16402	0.499
41DAP/39DAP	0.91535	0.53
42DAP/41DAP	0.94959	0.591
43DAP/42DAP	1.0878	0.513
47DAP/43DAP	1.05499	0.88
52DAP/47DAP	0.98727	0.93
57DAP/52DAP	0.94533	0.603
57DAP/7DAP	1.37154	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72921	0.091
17DAP/reference	0.71914	N/A
27DAP/reference	0.79654	0.264
39DAP/reference	1.01243	0.64
41DAP/reference	1.20203	0.614
42DAP/reference	0.98294	0.582
43DAP/reference	1.07017	0.023
47DAP/reference	1.44722	0.089
52DAP/reference	1.26056	0.328
57DAP/reference	1.03432	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74596	0.025
17DAP/reference	0.79544	0.008
27DAP/reference	0.86002	0.049
39DAP/reference	0.83992	0.173
41DAP/reference	0.88975	0.212
42DAP/reference	1.00198	0.723
43DAP/reference	0.86118	0.236
47DAP/reference	0.93961	0.359
52DAP/reference	1.0922	0.702
57DAP/reference	0.96857	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17859	0.804
17DAP/reference	0.73026	0.109
27DAP/reference	0.89587	N/A
39DAP/reference	1.48878	0.596
41DAP/reference	1.01258	1
42DAP/reference	0.90122	0.445
43DAP/reference	1.13803	0.432
47DAP/reference	1.15611	0.324
52DAP/reference	1.20283	0.289
57DAP/reference	0.89192	0.203

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96533	1
26DAP/20DAP	0.87216	0.512
34DAP/26DAP	1.108	1
51DAP/34DAP	1.2436	0.352
52DAP/51DAP	0.96256	1
53DAP/52DAP	0.96694	0.83
55DAP/53DAP	1.06446	0.733
57DAP/55DAP	0.82243	0.318
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.77172	N/A
68DAP/14DAP	1.8853	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12549	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.32645	0.071
Mature Green Tomato/Ripe Tomato	1.09055	0.69
Immature Eggplant/Mature Eggplant	1.15407	0.123
Ripe Pepper/Ripe Tomato	2.59706	1
Mature Eggplant/Ripe Tomato	0.54569	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.82957	0.613
1-1-2/M82	0.89998	N/A
12-2/M82	N/A	N/A
12-4/M82	1.11526	1
1-3/M82	0.74845	0.378
2-1-1/M82	1.05894	1
2-1/M82	N/A	N/A
2-6/M82	0.99848	1
3-2/M82	0.985	N/A
4-1-1/M82	1.0062	1
4-1/M82	0.97282	1
4-3-2/M82	0.85675	1
4-3/M82	0.82592	0.551
5-3/M82	0.92696	1
6-2/M82	N/A	N/A
6-3/M82	0.67128	N/A
7-1/M82	1.19858	N/A
7-2/M82	0.89172	N/A
9-3-2/M82	1.03025	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.05104	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.69541	N/A
IL12-4/WTpooled	0.88111	1
IL1-4/WTpooled	0.69194	0.444
WT/WTpooled	1.03201	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	1.10588	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93784	1
DC3000/delta hrp 6h	0.91279	0.95
DC3000/delta hrp 12h	1.08735	1
DC3000/delta hrp 24h	1.06071	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.84701	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26837	0.227
Exp 36h	1.29667	0.489
Exp 60h	1.1336	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00827	1
Var 0h	1.07754	0.98
Var 12h I row2-row1	1.05123	0.379
Var 12h NI row2-row1	1.20339	0.649
Var 36h I row2-row1	1.02722	1
Var 36h NI row2-row1	1.00164	1
Var 60h I row2-row1	0.86796	0.582
Var 60h NI row2-row1	1.13763	0.904
Time course 0hI-0hNI	0.97123	0.839
Time course 12hI-12hNI	0.96518	0.628
Time course 36hI-36hNI	0.92643	0.102
Time course 60hI-60hNI	0.77977	0.007

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)	1.03912	1
transgenic ySAMdc/azygous control (breaker)	0.96222	1
transgenic ySAMdc/azygous control (red)	0.99286	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.75791	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.39436	0.307
Manapal/WT (break)	0.93386	1
Manapal/WT (red)	0.99013	0.863