Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.7.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47915	0.124
27DAP/17DAP	1.27172	0.769
39DAP/27DAP	0.84898	0.353
41DAP/39DAP	1.03479	0.921
42DAP/41DAP	0.89567	1
43DAP/42DAP	1.08079	1
47DAP/43DAP	1.41566	0.216
52DAP/47DAP	1.06874	0.98
57DAP/52DAP	1.09749	0.843

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01677	0.844
17DAP/reference	1.01419	1
27DAP/reference	0.89092	0.349
39DAP/reference	0.92005	0.437
41DAP/reference	0.89934	0.434
42DAP/reference	1.05056	0.414
43DAP/reference	1.01768	1
47DAP/reference	1.42532	0.039
52DAP/reference	2.04455	0.009
57DAP/reference	1.27169	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96206	0.542
27DAP/17DAP	1.0108	0.98
39DAP/27DAP	1.23254	0.19
41DAP/39DAP	1.02005	0.921
42DAP/41DAP	0.94433	0.503
43DAP/42DAP	1.09498	0.351
47DAP/43DAP	1.0327	0.837
52DAP/47DAP	1.2658	0.289
57DAP/52DAP	1.38998	0.097
57DAP/7DAP	1.13366	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88541	0.122
17DAP/reference	0.88944	0.167
27DAP/reference	1.05485	0.453
39DAP/reference	0.88151	0.109
41DAP/reference	1.0257	0.791
42DAP/reference	1.2427	0.016
43DAP/reference	1.37818	0.087
47DAP/reference	0.97547	0.671
52DAP/reference	1.28596	0.012
57DAP/reference	0.86855	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77315	0.105
17DAP/reference	0.80354	0.086
27DAP/reference	0.91907	0.292
39DAP/reference	1.05308	1
41DAP/reference	1.01332	0.57
42DAP/reference	0.88828	0.189
43DAP/reference	0.79324	0.024
47DAP/reference	0.80962	0.123
52DAP/reference	0.70642	0.006
57DAP/reference	0.89929	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76582	0.044
17DAP/reference	0.9104	0.398
27DAP/reference	1.1547	0.271
39DAP/reference	0.73545	0.016
41DAP/reference	0.73974	0.031
42DAP/reference	0.90936	0.108
43DAP/reference	0.92416	0.365
47DAP/reference	1.15477	0.324
52DAP/reference	2.00429	0.028
57DAP/reference	1.83163	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.35454	0.966
26DAP/20DAP	0.80971	0.317
34DAP/26DAP	0.98425	0.991
51DAP/34DAP	1.04271	0.795
52DAP/51DAP	1.01451	0.904
53DAP/52DAP	1.00698	0.944
55DAP/53DAP	1.09397	0.629
57DAP/55DAP	1.06665	0.626
62DAP/57DAP	1.12873	0.007
68DAP/62DAP	1.05484	0.977
68DAP/14DAP	2.2332

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98496	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.35642	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.1049	0.224
Mature Eggplant/Ripe Tomato	0.25337	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.25257	0.536
1-1-2/M82	1.10763	0.891
12-2/M82	1.28188	0.405
12-4/M82	0.99669	1
1-3/M82	1.09404	1
2-1-1/M82	1.43324	0.457
2-1/M82	1.13388	1
2-6/M82	1.03357	1
3-2/M82	1.25878	0.84
4-1-1/M82	0.97657	1
4-1/M82	N/A	N/A
4-3-2/M82	0.86484	1
4-3/M82	1.19088	1
5-3/M82	0.82969	0.642
6-2/M82	1.20701
6-3/M82	N/A	N/A
7-1/M82	0.73939
7-2/M82	1.19454	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.64215
IL2-6/WTpooled	1.11359	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02591	1
IL12-4/WTpooled	1.05315	0.891
IL1-4/WTpooled	1.008	1
WT/WTpooled	0.88352	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	1.23271	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00206	1
DC3000/delta hrp 6h	1.02752	1
DC3000/delta hrp 12h	1.03391	1
DC3000/delta hrp 24h	1.10061	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03191	0.598
DC3000 delta B/DC3000 delta AB	1.0356	0.586

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	1.03431	1
Var 0h	0.82408	1
Var 12h I row2-row1	1.21244	0.283
Var 12h NI row2-row1	0.8208	0.488
Var 36h I row2-row1	0.79303	0.805
Var 36h NI row2-row1	1.12851	1
Var 60h I row2-row1	1.08176	0.543
Var 60h NI row2-row1	1.27297	0.904
Time course 0hI-0hNI	1.1497	0.662
Time course 12hI-12hNI	1.05941	0.72
Time course 36hI-36hNI	0.96651	0.317
Time course 60hI-60hNI	1.07094	0.254

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)	1.17363	0.541
transgenic ySAMdc/azygous control (breaker)	0.99278	1
transgenic ySAMdc/azygous control (red)	1.13649	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09151	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.47824	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01053	1
Manapal/WT (break)	0.82095	1
Manapal/WT (red)	1.56584	0.164