Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.4.13.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.50204	0.725
27DAP/17DAP	1.01779	1
39DAP/27DAP	1.33702	0.59
41DAP/39DAP	1.10232	0.935
42DAP/41DAP	1.1976	0.978
43DAP/42DAP	0.97895	0.909
47DAP/43DAP	1.37298	0.513
52DAP/47DAP	0.91501	0.721
57DAP/52DAP	0.83081	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3593	0.049
17DAP/reference	1.2675	0.457
27DAP/reference	1.0758	0.111
39DAP/reference	1.06233	0.786
41DAP/reference	1.42002	0.018
42DAP/reference	1.20626	0.007
43DAP/reference	0.85807	N/A
47DAP/reference	1.10857	0.243
52DAP/reference	1.24155	0.84
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08135	0.934
27DAP/17DAP	0.96354	0.887
39DAP/27DAP	0.93877	N/A
41DAP/39DAP	0.86303	0.512
42DAP/41DAP	2.78339	0.872
43DAP/42DAP	0.87076	N/A
47DAP/43DAP	0.8825	0.857
52DAP/47DAP	3.30294	0.234
57DAP/52DAP	0.83722	0.415
57DAP/7DAP	0.40837	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45785	0.17
17DAP/reference	2.02414	N/A
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	N/A	N/A
42DAP/reference	1.13966	N/A
43DAP/reference	N/A	N/A
47DAP/reference	N/A	N/A
52DAP/reference	2.65619	N/A
57DAP/reference	0.61637	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	1.33349	1
27DAP/reference	1.16598	0.516
39DAP/reference	1.39369	0.065
41DAP/reference	1.17876	0.309
42DAP/reference	1.13357	0.569
43DAP/reference	1.32214	N/A
47DAP/reference	1.07713	0.441
52DAP/reference	1.38417	0.007
57DAP/reference	1.45247	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56586	N/A
17DAP/reference	N/A	N/A
27DAP/reference	0.13015	N/A
39DAP/reference	0.67917	N/A
41DAP/reference	N/A	N/A
42DAP/reference	1.08829	0.994
43DAP/reference	0.83447	0.348
47DAP/reference	N/A	N/A
52DAP/reference	N/A	N/A
57DAP/reference	0.71003	0.062

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19039	0.966
26DAP/20DAP	1.30899	N/A
34DAP/26DAP	1.14965	N/A
51DAP/34DAP	0.76921	N/A
52DAP/51DAP	1.09048	N/A
53DAP/52DAP	0.98631	0.938
55DAP/53DAP	0.92693	0.761
57DAP/55DAP	0.72924	N/A
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	0.26644	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70241	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93825	0.243
IL2-6/WTpooled	0.9881	1
IL7-5/WTpooled	0.99923	N/A
IL7-3/WTpooled	0.94143	0.418
IL12-4/WTpooled	1.04673	0.839
IL1-4/WTpooled	0.90969	N/A
WT/WTpooled	1.06908	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	N/A	N/A

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	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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	N/A	N/A

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	0.99652	1
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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9161	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77274	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.07841	1
Manapal/WT (red)	N/A	N/A