Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.13.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03101	1
27DAP/17DAP	1.54746	0.744
39DAP/27DAP	0.97208	0.749
41DAP/39DAP	0.94368	0.789
42DAP/41DAP	1.20605	0.825
43DAP/42DAP	1.01027	0.925
47DAP/43DAP	0.99716	0.884
52DAP/47DAP	1.31086	0.596
57DAP/52DAP	0.71756	0.783

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72253	0.06
17DAP/reference	0.85901	0.013
27DAP/reference	0.87385	0.075
39DAP/reference	0.90927	0.234
41DAP/reference	0.87459	0.026
42DAP/reference	0.76762	0.002
43DAP/reference	0.85792	0.016
47DAP/reference	0.80433	0.006
52DAP/reference	0.81986	0.04
57DAP/reference	0.94724	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21946	0.797
27DAP/17DAP	1.02682	1
39DAP/27DAP	1.17772	0.845
41DAP/39DAP	1.01205	1
42DAP/41DAP	1.06423	0.845
43DAP/42DAP	1.32391	0.079
47DAP/43DAP	0.85802	0.63
52DAP/47DAP	1.7207	0.276
57DAP/52DAP	0.89399	0.601
57DAP/7DAP	0.87737	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85716	0.157
17DAP/reference	0.8021	0.012
27DAP/reference	0.72178	0.01
39DAP/reference	0.89235	0.146
41DAP/reference	0.8039	0.073
42DAP/reference	0.73592	0.013
43DAP/reference	0.6924	0.011
47DAP/reference	0.76596	0.079
52DAP/reference	0.88029	0.126
57DAP/reference	0.70845	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69956	0.009
17DAP/reference	0.7061	0.006
27DAP/reference	0.72232	0.01
39DAP/reference	0.71456	0.013
41DAP/reference	0.71015	0.053
42DAP/reference	0.87291	0.081
43DAP/reference	0.94845	0.385
47DAP/reference	0.87057	0.034
52DAP/reference	0.75891	0.016
57DAP/reference	0.81236	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81637	0.065
17DAP/reference	0.87736	0.275
27DAP/reference	0.67406	0.024
39DAP/reference	0.80151	0.031
41DAP/reference	0.87722	0.046
42DAP/reference	0.77154	0.049
43DAP/reference	0.72988	0.034
47DAP/reference	0.78127	0.005
52DAP/reference	0.71234	0.118
57DAP/reference	0.73275	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.35962	0.631
26DAP/20DAP	1.02242	1
34DAP/26DAP	1.02724	1
51DAP/34DAP	1.12203	0.677
52DAP/51DAP	0.90951	1
53DAP/52DAP	1.26167	0.47
55DAP/53DAP	0.97723	0.852
57DAP/55DAP	0.98335	0.783
62DAP/57DAP	0.9046	0.871
68DAP/62DAP	1.19077	0.054
68DAP/14DAP	1.07111	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91635	0.399

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	0.88795
1-1-2/M82	1.32535	1
12-2/M82	1.64051	1
12-4/M82	N/A	N/A
1-3/M82	0.66515
2-1-1/M82	1.05206	1
2-1/M82	N/A	N/A
2-6/M82	0.70945	1
3-2/M82	0.83309
4-1-1/M82	0.71141	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.76629	0.578
5-3/M82	0.86496	1
6-2/M82	N/A	N/A
6-3/M82	1.28111
7-1/M82	0.58198
7-2/M82	0.80276
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73337
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.41197
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.29582	0.891
IL1-4/WTpooled	0.57666
WT/WTpooled	1.01714	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	1.17707	0.846
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.29931	1
DC3000/delta hrp 24h	1.02043	1

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	0.91849	1
Var 12h I row2-row1	1.13006
Var 12h NI row2-row1	3.76652	1
Var 36h I row2-row1	0.38955	1
Var 36h NI row2-row1	1.34531
Var 60h I row2-row1	1.19425	1
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.64517	0.222
Time course 12hI-12hNI	0.78825
Time course 36hI-36hNI	1.23007	1
Time course 60hI-60hNI	3.5176	0.042

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)	76.9456	0.455
transgenic ySAMdc/azygous control (breaker)	9.53356	0.248
transgenic ySAMdc/azygous control (red)	1.46148	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93322	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07481	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95819	1
Manapal/WT (break)	0.80871	0.333
Manapal/WT (red)	N/A	N/A