Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91054	0.558
27DAP/17DAP	1.21892	0.833
39DAP/27DAP	0.8847	0.583
41DAP/39DAP	0.98853	0.92
42DAP/41DAP	0.79687	0.774
43DAP/42DAP	1.0396	1
47DAP/43DAP	1.06806	0.756
52DAP/47DAP	1.00967	0.959
57DAP/52DAP	1.31283	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87404	0.052
17DAP/reference	0.78662	0.007
27DAP/reference	0.98501	0.683
39DAP/reference	0.95804	0.475
41DAP/reference	0.78055	0.085
42DAP/reference	0.82694	0.002
43DAP/reference	0.89182	0.04
47DAP/reference	0.82925	0.004
52DAP/reference	1.05264	0.176
57DAP/reference	1.06903	0.28

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07418	0.961
27DAP/17DAP	1.0484	0.942
39DAP/27DAP	1.06303	1
41DAP/39DAP	1.20962	0.427
42DAP/41DAP	1.02001	0.902
43DAP/42DAP	0.79224	0.079
47DAP/43DAP	0.96058	0.87
52DAP/47DAP	0.99226	0.935
57DAP/52DAP	1.28254	0.584
57DAP/7DAP	0.90182

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06299	0.676
17DAP/reference	1.00515	0.693
27DAP/reference	0.89653	0.101
39DAP/reference	0.75793	0.021
41DAP/reference	0.7933	0.047
42DAP/reference	0.7085	0.017
43DAP/reference	0.83294	0.046
47DAP/reference	0.99982	1
52DAP/reference	0.90085	0.254
57DAP/reference	0.91076	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86743	0.268
17DAP/reference	0.74037	0.009
27DAP/reference	0.85441	0.15
39DAP/reference	0.94755	0.235
41DAP/reference	0.97385	0.432
42DAP/reference	0.98704	0.594
43DAP/reference	0.87748	0.181
47DAP/reference	0.90465	0.113
52DAP/reference	0.88003	0.034
57DAP/reference	0.79463	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89984	0.045
17DAP/reference	0.95346	0.579
27DAP/reference	0.99242	0.727
39DAP/reference	0.95962	0.36
41DAP/reference	0.98517	0.618
42DAP/reference	0.90055	0.287
43DAP/reference	0.8263	0.068
47DAP/reference	0.97458	0.478
52DAP/reference	0.95185	0.551
57DAP/reference	1.17747	0.16

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03402	1
26DAP/20DAP	1.05944	0.931
34DAP/26DAP	0.95261	0.898
51DAP/34DAP	1.24726	0.192
52DAP/51DAP	0.93092	1
53DAP/52DAP	1.08976	0.921
55DAP/53DAP	1.13412	0.911
57DAP/55DAP	1.15235	0.975
62DAP/57DAP	0.95093	0.871
68DAP/62DAP	1.32006	0.956
68DAP/14DAP	1.38109	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76036	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.92408	0.113
Mature Green Tomato/Ripe Tomato	2.10451	0.015
Immature Eggplant/Mature Eggplant	0.98941	1
Ripe Pepper/Ripe Tomato	2.388	0.258
Mature Eggplant/Ripe Tomato	1.76862	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.76744
12-2/M82	N/A	N/A
12-4/M82	0.76754	0.275
1-3/M82	N/A	N/A
2-1-1/M82	0.85538
2-1/M82	1.18229
2-6/M82	1.06145	0.594
3-2/M82	0.65187	0.44
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.87339
4-3/M82	0.87497	0.72
5-3/M82	1.32236
6-2/M82	0.93182
6-3/M82	N/A	N/A
7-1/M82	1.48971
7-2/M82	1.24731	1
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.99933
IL1-4/WTpooled	0.94097
WT/WTpooled	1.15147

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	0.98335	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13106	0.692
DC3000/delta hrp 6h	1.05079	1
DC3000/delta hrp 12h	0.88738	1
DC3000/delta hrp 24h	1.10667	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12525	1
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	1.00702	1
Exp 36h	0.8972	0.661
Exp 60h	0.97708	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03242	1
Var 0h	1.02141	1
Var 12h I row2-row1	0.92917	0.705
Var 12h NI row2-row1	1.31471	1
Var 36h I row2-row1	0.99528	1
Var 36h NI row2-row1	0.83245	0.645
Var 60h I row2-row1	0.74062	0.439
Var 60h NI row2-row1	0.9133	0.977
Time course 0hI-0hNI	1.05646	0.852
Time course 12hI-12hNI	1.03692	0.72
Time course 36hI-36hNI	1.32993	0.009
Time course 60hI-60hNI	1.90966	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)	1.05027	0.331
transgenic ySAMdc/azygous control (breaker)	1.2763	0.248
transgenic ySAMdc/azygous control (red)	0.98954	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05395	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66775	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24057	0.086
Manapal/WT (break)	1.07207	1
Manapal/WT (red)	1.06095	1