Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10177	0.977
27DAP/17DAP	1.36845	0.808
39DAP/27DAP	0.90609	0.62
41DAP/39DAP	1.65913	0.483
42DAP/41DAP	1.15876	0.978
43DAP/42DAP	1.04325	1
47DAP/43DAP	1.04624	0.746
52DAP/47DAP	1.01861	0.837
57DAP/52DAP	1.62006	0.688

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92065	0.194
17DAP/reference	1.12864	0.04
27DAP/reference	1.04041	0.759
39DAP/reference	1.06617	0.214
41DAP/reference	1.14775	0.043
42DAP/reference	0.90943	0.017
43DAP/reference	0.95986	0.464
47DAP/reference	0.93608	0.09
52DAP/reference	0.91945	0.21
57DAP/reference	0.95854	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97477	0.763
27DAP/17DAP	1.10363	0.9
39DAP/27DAP	0.92425	0.601
41DAP/39DAP	1.18224	0.807
42DAP/41DAP	0.83663	0.218
43DAP/42DAP	1.02972	0.788
47DAP/43DAP	1.2842	0.161
52DAP/47DAP	1.17368	0.489
57DAP/52DAP	0.90562	0.461
57DAP/7DAP	1.03003	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02407	0.945
17DAP/reference	1.05257	0.437
27DAP/reference	1.08432	0.197
39DAP/reference	1.01564	1
41DAP/reference	1.07117	0.723
42DAP/reference	0.8927	0.169
43DAP/reference	1.14305	0.017
47DAP/reference	0.98572	0.671
52DAP/reference	0.98182	0.571
57DAP/reference	0.97701	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05866	0.612
17DAP/reference	0.85486	0.059
27DAP/reference	0.77631	0.039
39DAP/reference	0.8417	0.168
41DAP/reference	0.89618	0.148
42DAP/reference	0.96457	0.392
43DAP/reference	0.98244	0.657
47DAP/reference	0.98097	0.5
52DAP/reference	0.95691	0.327
57DAP/reference	1.00283	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00736	1
17DAP/reference	1.05192	0.706
27DAP/reference	1.03783	0.695
39DAP/reference	1.13323	0.053
41DAP/reference	1.00555	1
42DAP/reference	0.95222	0.445
43DAP/reference	0.89528	0.281
47DAP/reference	0.97362	0.494
52DAP/reference	0.94011	0.415
57DAP/reference	0.71962	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16867	0.966
26DAP/20DAP	0.69156	0.228
34DAP/26DAP	0.83727	0.079
51DAP/34DAP	0.77294	0.286
52DAP/51DAP	1.31378	0.431
53DAP/52DAP	1.11622	0.806
55DAP/53DAP	1.04804	0.981
57DAP/55DAP	0.87022	0.556
62DAP/57DAP	1.18791	0.833
68DAP/62DAP	0.93119	0.769
68DAP/14DAP	1.00597	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.71473	0.269

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	6.00463	0.076
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	0.95074	0.934
1-1-2/M82	0.92301
12-2/M82	N/A	N/A
12-4/M82	1.13501	1
1-3/M82	0.81706
2-1-1/M82	1.41211
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.58796
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	0.85381
5-3/M82	1.03995	1
6-2/M82	N/A	N/A
6-3/M82	0.87392
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	N/A	N/A
IL2-6/WTpooled	1.08045	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05092	1
IL12-4/WTpooled	1.16459	0.532
IL1-4/WTpooled	1.63921	1
WT/WTpooled	0.8748	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	1.01498	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90559	1
DC3000/delta hrp 6h	0.46758	1
DC3000/delta hrp 12h	1.02096	1
DC3000/delta hrp 24h	1.13749	0.438

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	1.10338	1
Exp 36h	1.80323	1
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	1.00206	1
Var 0h	1.0093	1
Var 12h I row2-row1	0.51801	0.856
Var 12h NI row2-row1	0.45526	0.546
Var 36h I row2-row1	0.54175	1
Var 36h NI row2-row1	2.01847
Var 60h I row2-row1	1.0474	0.562
Var 60h NI row2-row1	0.5662	0.408
Time course 0hI-0hNI	1.35438
Time course 12hI-12hNI	0.65066	1
Time course 36hI-36hNI	1.59342	0.08
Time course 60hI-60hNI	2.92767	0.008

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)	1.69736	0.699
transgenic ySAMdc/azygous control (breaker)	1.1994	0.248
transgenic ySAMdc/azygous control (red)	1.03869	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99415	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99809	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73783	1
Manapal/WT (break)	0.70825	0.333
Manapal/WT (red)	N/A	N/A