Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.2.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80198	0.253
27DAP/17DAP	0.92427	0.857
39DAP/27DAP	1.04617	0.876
41DAP/39DAP	1.06512	0.742
42DAP/41DAP	1.13751	0.712
43DAP/42DAP	0.77161	0.579
47DAP/43DAP	1.63996	0.429
52DAP/47DAP	1.2968	0.646
57DAP/52DAP	0.87983	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95871	0.308
17DAP/reference	1.10138	0.239
27DAP/reference	0.98826	0.725
39DAP/reference	1.05553	0.524
41DAP/reference	1.11857	0.393
42DAP/reference	0.83791	0.009
43DAP/reference	1.0619	0.445
47DAP/reference	0.81652	0.014
52DAP/reference	0.8899	0.102
57DAP/reference	0.98709	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95309	0.613
27DAP/17DAP	1.16649	0.836
39DAP/27DAP	1.18207	0.532
41DAP/39DAP	0.70533	0.147
42DAP/41DAP	1.39667	0.043
43DAP/42DAP	0.9892	0.928
47DAP/43DAP	1.0508	0.956
52DAP/47DAP	1.20072	0.498
57DAP/52DAP	1.08335	0.851
57DAP/7DAP	1.56471	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83272	0.1
17DAP/reference	0.81565	0.014
27DAP/reference	0.91166	0.135
39DAP/reference	0.76731	0.016
41DAP/reference	0.84725	0.031
42DAP/reference	0.90611	0.248
43DAP/reference	0.77991	0.024
47DAP/reference	0.97514	0.671
52DAP/reference	0.92087	0.232
57DAP/reference	0.88019	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08787	0.36
17DAP/reference	0.89218	0.253
27DAP/reference	0.99491	0.537
39DAP/reference	0.83932	0.165
41DAP/reference	0.96471	0.384
42DAP/reference	0.80299	0.042
43DAP/reference	0.92189	0.361
47DAP/reference	0.876	0.03
52DAP/reference	0.92241	0.259
57DAP/reference	0.73266	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00855	0.804
17DAP/reference	0.88612	0.177
27DAP/reference	0.83733	0.147
39DAP/reference	0.8104	0.046
41DAP/reference	0.87213	0.046
42DAP/reference	0.81552	0.087
43DAP/reference	0.82046	0.073
47DAP/reference	0.89637	0.215
52DAP/reference	0.86365	0.22
57DAP/reference	0.83299	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24218	0.966
26DAP/20DAP	0.84795	1
34DAP/26DAP	1.01511	1
51DAP/34DAP	1.39806	0.04
52DAP/51DAP	0.6663	0.079
53DAP/52DAP	1.1948	0.688
55DAP/53DAP	1.06357	0.982
57DAP/55DAP	1.34258	0.461
62DAP/57DAP	1.01455	1
68DAP/62DAP	1.00607	0.939
68DAP/14DAP	0.99947	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.38737	0.041

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.39308	0.118
Mature Green Tomato/Ripe Tomato	1.10475	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.25372	N/A
Mature Eggplant/Ripe Tomato	1.84461	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.19609	1
12-2/M82	N/A	N/A
12-4/M82	0.91043	1
1-3/M82	N/A	N/A
2-1-1/M82	1.21303	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.0319	N/A
4-3-2/M82	0.90974	N/A
4-3/M82	1.67725	N/A
5-3/M82	1.05937	0.496
6-2/M82	N/A	N/A
6-3/M82	0.98729	1
7-1/M82	0.96611	N/A
7-2/M82	0.94785	N/A
9-3-2/M82	1.25141	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92176	0.321
IL2-6/WTpooled	1.24579	0.584
IL7-5/WTpooled	0.72374	1
IL7-3/WTpooled	0.82671	0.294
IL12-4/WTpooled	1.13627	0.695
IL1-4/WTpooled	0.93938	0.562
WT/WTpooled	0.93798	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	1.30811	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.85239	0.95
DC3000/delta hrp 12h	0.84317	1
DC3000/delta hrp 24h	1.26108	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.36522	N/A
DC3000 delta B/DC3000 delta AB	1.36884	0.253

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.43497	0.693
Exp 60h	1.41572	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97549	1
Var 0h	0.89175	1
Var 12h I row2-row1	1.05829	0.692
Var 12h NI row2-row1	1.26143	1
Var 36h I row2-row1	1.0919	1
Var 36h NI row2-row1	0.96345	0.791
Var 60h I row2-row1	0.87858	0.285
Var 60h NI row2-row1	0.80915	0.904
Time course 0hI-0hNI	1.01531	0.867
Time course 12hI-12hNI	0.97622	0.808
Time course 36hI-36hNI	1.33993	0.008
Time course 60hI-60hNI	2.96334	0.008

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)	1.07024	0.221
transgenic ySAMdc/azygous control (breaker)	1.09558	0.248
transgenic ySAMdc/azygous control (red)	1.03988	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03306	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.43529	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84185	1
Manapal/WT (break)	0.8909	1
Manapal/WT (red)	0.85973	0.242