Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.2.4.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83001	0.347
27DAP/17DAP	0.78912	0.478
39DAP/27DAP	1.51184	0.101
41DAP/39DAP	0.86108	0.43
42DAP/41DAP	0.75903	0.774
43DAP/42DAP	1.20562	0.892
47DAP/43DAP	0.73079	0.212
52DAP/47DAP	1.93839	0.285
57DAP/52DAP	0.96089	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96456	0.476
17DAP/reference	1.04359	0.585
27DAP/reference	1.37924	0.03
39DAP/reference	1.1862	0.059
41DAP/reference	1.10109	0.759
42DAP/reference	0.92833	0.064
43DAP/reference	0.90868	0.163
47DAP/reference	0.93808	0.148
52DAP/reference	1.07787	0.371
57DAP/reference	1.30836	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04364	0.797
27DAP/17DAP	1.20269	0.381
39DAP/27DAP	1.06677	0.56
41DAP/39DAP	0.8825	0.372
42DAP/41DAP	0.98993	0.84
43DAP/42DAP	0.89451	0.216
47DAP/43DAP	1.03147	0.906
52DAP/47DAP	0.99883	0.962
57DAP/52DAP	1.05662	0.838
57DAP/7DAP	1.19007	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35966	0.04
17DAP/reference	1.21321	0.015
27DAP/reference	1.75841	0.009
39DAP/reference	1.22556	0.015
41DAP/reference	1.27564	0.03
42DAP/reference	1.43341	0.009
43DAP/reference	2.10901	0.006
47DAP/reference	1.20521	0.043
52DAP/reference	1.43083	0.012
57DAP/reference	0.97174	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09327	0.787
17DAP/reference	0.76195	0.005
27DAP/reference	1.08559	0.902
39DAP/reference	1.05298	0.783
41DAP/reference	0.97268	0.451
42DAP/reference	0.99057	0.594
43DAP/reference	1.0294	1
47DAP/reference	0.98706	0.512
52DAP/reference	1.41898	0.559
57DAP/reference	0.70315	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3653	0.026
17DAP/reference	1.0905	0.865
27DAP/reference	2.07946	0.023
39DAP/reference	2.18155	0.013
41DAP/reference	1.70797	0.009
42DAP/reference	1.83981	0.017
43DAP/reference	1.43507	0.16
47DAP/reference	0.96737	0.465
52DAP/reference	1.74689	0.072
57DAP/reference	1.3578	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2141	0.966
26DAP/20DAP	1.28586	0.753
34DAP/26DAP	1.13399	0.542
51DAP/34DAP	1.27521	0.352
52DAP/51DAP	1.16653	0.271
53DAP/52DAP	0.94798	0.803
55DAP/53DAP	0.87624	0.376
57DAP/55DAP	1.0556	0.935
62DAP/57DAP	1.59879	0.445
68DAP/62DAP	1.75544	0.162
68DAP/14DAP	1.32582	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82731	0.052

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01153	0.658
Mature Green Tomato/Ripe Tomato	0.51008	0.02
Immature Eggplant/Mature Eggplant	1.481	0.052
Ripe Pepper/Ripe Tomato	1.09212	1
Mature Eggplant/Ripe Tomato	1.1652	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8197	N/A
1-1-2/M82	0.97285	1
12-2/M82	1.36142	N/A
12-4/M82	1.09456	1
1-3/M82	1.27763	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.58844	N/A
3-2/M82	1.14916	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.35713	N/A
4-3-2/M82	1.5729	0.262
4-3/M82	0.9849	1
5-3/M82	1.25703	1
6-2/M82	1.21007	N/A
6-3/M82	0.98595	1
7-1/M82	0.9326	N/A
7-2/M82	0.95623	N/A
9-3-2/M82	1.19295	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.45219	0.277
IL2-6/WTpooled	0.20786	0.348
IL7-5/WTpooled	1.07021	1
IL7-3/WTpooled	0.88944	1
IL12-4/WTpooled	1.47374	0.516
IL1-4/WTpooled	0.79739	0.476
WT/WTpooled	1.02395	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	0.91873	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03093	0.921
DC3000/delta hrp 6h	1.18096	0.95
DC3000/delta hrp 12h	0.94678	1
DC3000/delta hrp 24h	1.0362	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72906	0.196
DC3000 delta B/DC3000 delta AB	1.38675	0.192

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98506	1
Exp 36h	1.42696	1
Exp 60h	1.33501	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92523	N/A
Var 0h	1.0522	1
Var 12h I row2-row1	0.98194	0.357
Var 12h NI row2-row1	0.92976	0.906
Var 36h I row2-row1	0.61773	0.805
Var 36h NI row2-row1	0.99472	N/A
Var 60h I row2-row1	1.65792	N/A
Var 60h NI row2-row1	1.16946	0.904
Time course 0hI-0hNI	0.96724	0.829
Time course 12hI-12hNI	1.06069	0.55
Time course 36hI-36hNI	0.98276	0.549
Time course 60hI-60hNI	1.33103	0.011

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)	1.00227	1
transgenic ySAMdc/azygous control (breaker)	1.07372	1
transgenic ySAMdc/azygous control (red)	1.06391	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03647	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15157	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8356	1
Manapal/WT (break)	0.88386	1
Manapal/WT (red)	0.73979	0.181