Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.20.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08164	0.851
27DAP/17DAP	1.18751	0.833
39DAP/27DAP	1.00475	0.641
41DAP/39DAP	1.15346	0.871
42DAP/41DAP	0.77684	1
43DAP/42DAP	1.17901	0.799
47DAP/43DAP	1.12723	0.972
52DAP/47DAP	1.42384	0.869
57DAP/52DAP	0.90995	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91981	0.432
17DAP/reference	0.91703	0.474
27DAP/reference	1.24911	0.559
39DAP/reference	0.9691	0.779
41DAP/reference	1.1108	0.451
42DAP/reference	0.28176
43DAP/reference	0.78534	0.41
47DAP/reference	N/A	N/A
52DAP/reference	0.92326	0.077
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97055	0.716
27DAP/17DAP	1.11816	0.842
39DAP/27DAP	1.02088	1
41DAP/39DAP	0.92536	0.764
42DAP/41DAP	1.12066	0.763
43DAP/42DAP	1.14137	0.446
47DAP/43DAP	0.89171	0.395
52DAP/47DAP	0.85191	0.42
57DAP/52DAP	0.88743	0.322
57DAP/7DAP	0.86098	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89104	0.088
17DAP/reference	0.88557	0.072
27DAP/reference	1.06299	0.664
39DAP/reference	0.80145	0.025
41DAP/reference	0.85298	0.098
42DAP/reference	0.7824	0.018
43DAP/reference	0.82015	0.033
47DAP/reference	0.94812	0.504
52DAP/reference	1.02172	0.802
57DAP/reference	0.8792	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08602	0.577
17DAP/reference	1.13966	0.348
27DAP/reference	1.0155	0.735
39DAP/reference	1.20615	0.22
41DAP/reference	0.8561	0.103
42DAP/reference	1.0926
43DAP/reference	1.37574	0.219
47DAP/reference	0.85724	0.27
52DAP/reference	1.29969	0.014
57DAP/reference	1.21864	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84599	0.068
17DAP/reference	0.96997	0.636
27DAP/reference	1.06288	0.51
39DAP/reference	0.93861	0.271
41DAP/reference	0.96227	0.459
42DAP/reference	0.90695	0.287
43DAP/reference	1.0018	1
47DAP/reference	0.93195	0.315
52DAP/reference	0.77934	0.073
57DAP/reference	0.82663	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39736	0.966
26DAP/20DAP	1.16416	0.941
34DAP/26DAP	0.74953	0.093
51DAP/34DAP	0.91285	0.799
52DAP/51DAP	1.38702	0.596
53DAP/52DAP	0.96091	0.783
55DAP/53DAP	0.9373	0.761
57DAP/55DAP	1.11848	0.805
62DAP/57DAP	1.07575	0.833
68DAP/62DAP	1.02284	0.939
68DAP/14DAP	0.86714	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19523	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.34999	0.105
Mature Green Tomato/Ripe Tomato	0.97499	0.569
Immature Eggplant/Mature Eggplant	1.42812	0.379
Ripe Pepper/Ripe Tomato	2.81852	1
Mature Eggplant/Ripe Tomato	0.55945	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93438	0.944
1-1-2/M82	1.05803
12-2/M82	N/A	N/A
12-4/M82	1.10565	0.655
1-3/M82	0.76952	0.335
2-1-1/M82	0.98808	1
2-1/M82	1.26981
2-6/M82	1.10713	1
3-2/M82	1.12206
4-1-1/M82	0.9554	1
4-1/M82	1.06019
4-3-2/M82	1.06074
4-3/M82	N/A	N/A
5-3/M82	0.98866	1
6-2/M82	N/A	N/A
6-3/M82	1.04669	1
7-1/M82	N/A	N/A
7-2/M82	0.81398	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.05261	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12354	0.362
IL12-4/WTpooled	1.25631	0.532
IL1-4/WTpooled	1.05306	1
WT/WTpooled	1.00418	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	1.23389	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99931	1
DC3000/delta hrp 6h	1.01309	1
DC3000/delta hrp 12h	1.05674	1
DC3000/delta hrp 24h	1.06428	0.553

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	2.22355	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11196	1
Exp 36h	1.20308	0.693
Exp 60h	1.29366	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99211	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.2565	0.406
Var 12h NI row2-row1	0.8274	0.488
Var 36h I row2-row1	1.09548	1
Var 36h NI row2-row1	0.79389	0.706
Var 60h I row2-row1	1.01018	1
Var 60h NI row2-row1	1.16243	0.904
Time course 0hI-0hNI	1.04833	0.852
Time course 12hI-12hNI	0.96569	0.782
Time course 36hI-36hNI	0.79456	0.033
Time course 60hI-60hNI	0.85228	0.161

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)	0.93174	0.309
transgenic ySAMdc/azygous control (breaker)	0.90321	0.173
transgenic ySAMdc/azygous control (red)	0.95306	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03311	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90454	1
Manapal/WT (break)	0.81055	1
Manapal/WT (red)	0.73179	0.181