Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.12.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35179	0.281
27DAP/17DAP	0.70757	0.272
39DAP/27DAP	0.79785	0.425
41DAP/39DAP	1.07217	0.676
42DAP/41DAP	1.11184	0.876
43DAP/42DAP	0.73297	0.551
47DAP/43DAP	0.94363	0.768
52DAP/47DAP	1.8952	0.262
57DAP/52DAP	0.91279	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99311	0.679
17DAP/reference	1.21581	0.104
27DAP/reference	1.21135	0.121
39DAP/reference	1.43771	0.068
41DAP/reference	1.31333	0.032
42DAP/reference	1.71391	0.001
43DAP/reference	0.94087	0.464
47DAP/reference	0.9941	0.535
52DAP/reference	0.90642	0.319
57DAP/reference	0.89892	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20363	0.298
27DAP/17DAP	0.96971	0.878
39DAP/27DAP	1.37872	0.072
41DAP/39DAP	0.80262	0.047
42DAP/41DAP	1.05638	0.8
43DAP/42DAP	1.08958	0.478
47DAP/43DAP	0.98874	0.939
52DAP/47DAP	1.01514	0.965
57DAP/52DAP	1.04471	0.858
57DAP/7DAP	0.92356	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81769	0.071
17DAP/reference	0.94713	0.192
27DAP/reference	1.03955	0.804
39DAP/reference	1.35468	0.024
41DAP/reference	0.89751	0.235
42DAP/reference	0.99148	0.641
43DAP/reference	0.98186	0.527
47DAP/reference	1.05163	0.98
52DAP/reference	0.84849	0.066
57DAP/reference	0.94453	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95137	0.58
17DAP/reference	1.09349	0.739
27DAP/reference	1.22639	0.497
39DAP/reference	1.34453	0.066
41DAP/reference	0.99884	0.557
42DAP/reference	1.2196	0.086
43DAP/reference	1.50494	0.082
47DAP/reference	1.5769	0.028
52DAP/reference	1.04598	1
57DAP/reference	1.09854	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84661	0.074
17DAP/reference	1.14549	0.563
27DAP/reference	1.10907	0.325
39DAP/reference	0.99154	0.643
41DAP/reference	1.16052	0.257
42DAP/reference	1.23352	0.082
43DAP/reference	1.05248	0.935
47DAP/reference	1.1095	0.73
52DAP/reference	0.89241	0.303
57DAP/reference	1.39578	0.061

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10588	0.966
26DAP/20DAP	0.87107	0.512
34DAP/26DAP	1.16008	1
51DAP/34DAP	0.86697	0.458
52DAP/51DAP	0.77798	1
53DAP/52DAP	0.85382	0.342
55DAP/53DAP	1.76722	0.046
57DAP/55DAP	0.83334	0.37
62DAP/57DAP	0.97181	0.994
68DAP/62DAP	1.24343	0.202
68DAP/14DAP	0.85123

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1495	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.32136	0.036
Immature Eggplant/Mature Eggplant	0.58422	0.066
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.49058	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1374	1
1-1-2/M82	1.07391	1
12-2/M82	1.39018
12-4/M82	0.84293	1
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	0.85685
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.62552
4-3-2/M82	0.84833	1
4-3/M82	N/A	N/A
5-3/M82	0.99693	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.01731	1
9-3-2/M82	1.16213

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.5004	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98034	1
IL12-4/WTpooled	0.62723	0.581
IL1-4/WTpooled	0.85948	0.562
WT/WTpooled	0.99979	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	1.67802	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05918	0.875
DC3000/delta hrp 6h	1.22793	0.978
DC3000/delta hrp 12h	1.48789	1
DC3000/delta hrp 24h	0.91395	0.513

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75356	0.035
DC3000 delta B/DC3000 delta AB	0.60798	0.033

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21428	0.228
Exp 36h	0.70496	0.434
Exp 60h	0.76279	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01662	1
Var 0h	1.11477	0.421
Var 12h I row2-row1	0.70922	0.357
Var 12h NI row2-row1	1.23009	0.34
Var 36h I row2-row1	0.8998	1
Var 36h NI row2-row1	1.06297	1
Var 60h I row2-row1	1.32896	0.562
Var 60h NI row2-row1	0.82577	0.818
Time course 0hI-0hNI	1.14328	0.451
Time course 12hI-12hNI	0.88701	0.374
Time course 36hI-36hNI	0.88186	0.241
Time course 60hI-60hNI	0.41549	0.006

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)	0.67133	0.362
transgenic ySAMdc/azygous control (breaker)	0.92999	1
transgenic ySAMdc/azygous control (red)	0.84068	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97408	0.181

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.15395	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49119	1
Manapal/WT (break)	0.54949	1
Manapal/WT (red)	1.02585	1