Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.1.4.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98468	0.83
27DAP/17DAP	1.18795	0.829
39DAP/27DAP	1.05592	0.769
41DAP/39DAP	0.85527	0.545
42DAP/41DAP	1.10476	0.949
43DAP/42DAP	0.88611	0.705
47DAP/43DAP	1.2044	0.68
52DAP/47DAP	1.43504	0.773
57DAP/52DAP	0.92602	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87644	0.098
17DAP/reference	1.00987	1
27DAP/reference	1.00773	1
39DAP/reference	1.00266	0.941
41DAP/reference	1.04643	0.624
42DAP/reference	0.93053	0.099
43DAP/reference	1.09261	0.403
47DAP/reference	0.97165	0.392
52DAP/reference	1.02316	0.84
57DAP/reference	1.09467	0.041

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05954	0.749
27DAP/17DAP	0.90446	0.684
39DAP/27DAP	0.95262	0.703
41DAP/39DAP	0.89995	0.617
42DAP/41DAP	1.06692	0.916
43DAP/42DAP	1.00479	1
47DAP/43DAP	0.94705	0.757
52DAP/47DAP	1.42914	0.122
57DAP/52DAP	1.57177	0.057
57DAP/7DAP	1.62272	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75516	0.059
17DAP/reference	0.8487	0.044
27DAP/reference	1.10609	0.301
39DAP/reference	1.22151	0.081
41DAP/reference	1.05483	0.949
42DAP/reference	1.00759	0.791
43DAP/reference	1.18268	0.457
47DAP/reference	1.00764	1
52DAP/reference	0.97756	0.477
57DAP/reference	1.10306	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94685	0.592
17DAP/reference	0.85962	0.075
27DAP/reference	0.99616	0.619
39DAP/reference	1.06078	0.848
41DAP/reference	1.0298	0.944
42DAP/reference	0.96353	0.392
43DAP/reference	1.16572	0.526
47DAP/reference	1.05719	0.965
52DAP/reference	0.966	0.407
57DAP/reference	0.9871	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9326	0.362
17DAP/reference	1.1488	0.333
27DAP/reference	0.86013	0.062
39DAP/reference	0.99007	0.819
41DAP/reference	1.12703	0.319
42DAP/reference	1.08841	0.47
43DAP/reference	0.79317	0.125
47DAP/reference	0.92643	0.335
52DAP/reference	0.86062	0.204
57DAP/reference	1.11456	0.223

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1898	0.966
26DAP/20DAP	1.74361	0.487
34DAP/26DAP	1.40206	1
51DAP/34DAP	0.99651	0.863
52DAP/51DAP	1.68075	0.035
53DAP/52DAP	0.75167	0.159
55DAP/53DAP	1.5598	0.049
57DAP/55DAP	0.74728	0.157
62DAP/57DAP	1.51614	N/A
68DAP/62DAP	1.12864	N/A
68DAP/14DAP	1.20225	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.48243	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.88856	N/A
Immature Eggplant/Mature Eggplant	1.63031	0.085
Ripe Pepper/Ripe Tomato	0.38607	N/A
Mature Eggplant/Ripe Tomato	1.20269	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91178	0.944
1-1-2/M82	1.04511	1
12-2/M82	1.12208	N/A
12-4/M82	1.20752	1
1-3/M82	0.87648	0.501
2-1-1/M82	0.93023	0.683
2-1/M82	1.2219	N/A
2-6/M82	1.1374	1
3-2/M82	0.87534	N/A
4-1-1/M82	0.85025	1
4-1/M82	1.79672	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.34395	N/A
5-3/M82	1.03417	1
6-2/M82	0.85854	1
6-3/M82	0.96161	1
7-1/M82	0.99132	1
7-2/M82	1.00452	1
9-3-2/M82	0.97124	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	2.15873	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.3196	1
IL12-4/WTpooled	0.94459	1
IL1-4/WTpooled	0.98145	N/A
WT/WTpooled	0.99348	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	1.06714	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11226	0.692
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.25314	1
DC3000/delta hrp 24h	1.04515	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.68232	0.183
DC3000 delta B/DC3000 delta AB	1.37106	0.186

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.27659	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.7684	0.782
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.08782	0.384
transgenic ySAMdc/azygous control (breaker)	1.36244	0.172
transgenic ySAMdc/azygous control (red)	1.2642	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04895	0.155

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)	1.00063	1
Manapal/WT (break)	0.85738	1
Manapal/WT (red)	0.5945	0.181