Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.11.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78299	0.272
27DAP/17DAP	1.66172	0.723
39DAP/27DAP	0.90432	0.594
41DAP/39DAP	1.08938	0.938
42DAP/41DAP	1.06385	1
43DAP/42DAP	0.96599	0.909
47DAP/43DAP	1.10785	0.979
52DAP/47DAP	0.75297	0.413
57DAP/52DAP	0.81249	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99818	0.743
17DAP/reference	1.12606	0.282
27DAP/reference	1.01352	1
39DAP/reference	1.10283	0.125
41DAP/reference	1.15422	0.133
42DAP/reference	0.79013	0.014
43DAP/reference	0.97503	0.708
47DAP/reference	0.86917	0.03
52DAP/reference	0.92576	0.25
57DAP/reference	0.83954	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.63217	0.298
27DAP/17DAP	1.13771	0.61
39DAP/27DAP	0.9617	0.795
41DAP/39DAP	1.32187	0.663
42DAP/41DAP	0.89429	0.407
43DAP/42DAP	1.18004	0.413
47DAP/43DAP	1.12366	0.88
52DAP/47DAP	1.08063	0.844
57DAP/52DAP	1.0895	0.732
57DAP/7DAP	1.25061	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17494	0.286
17DAP/reference	1.2936	0.019
27DAP/reference	1.14848	0.073
39DAP/reference	0.96072	0.411
41DAP/reference	0.96559	0.449
42DAP/reference	1.07124	0.308
43DAP/reference	1.36493	0.008
47DAP/reference	0.99288	0.671
52DAP/reference	0.95971	0.332
57DAP/reference	1.35287	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13762	0.979
17DAP/reference	1.21139	0.69
27DAP/reference	1.07704	0.735
39DAP/reference	0.9438	0.281
41DAP/reference	0.75373	0.169
42DAP/reference	0.79041	0.021
43DAP/reference	1.08683	0.745
47DAP/reference	0.8938	0.092
52DAP/reference	1.04016	1
57DAP/reference	1.31578	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08636	0.444
17DAP/reference	1.15527	0.551
27DAP/reference	1.34914	0.035
39DAP/reference	1.32058	0.046
41DAP/reference	1.1233	0.222
42DAP/reference	1.08752	0.692
43DAP/reference	1.00804	0.767
47DAP/reference	1.07665	1
52DAP/reference	1.36617	0.115
57DAP/reference	0.75784	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30973	0.878
26DAP/20DAP	1.42583	0.453
34DAP/26DAP	0.85567	0.584
51DAP/34DAP	0.81186	0.563
52DAP/51DAP	1.35627	0.662
53DAP/52DAP	1.03452	0.868
55DAP/53DAP	1.04223	0.964
57DAP/55DAP	1.08851	0.898
62DAP/57DAP	1.0904	0.902
68DAP/62DAP	0.62711	0.032
68DAP/14DAP	3.10809	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08182	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.46146
Immature Eggplant/Mature Eggplant	N/A	N/A
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	1.04456	1
1-1-2/M82	0.89765	0.804
12-2/M82	1.11488	1
12-4/M82	1.06239
1-3/M82	N/A	N/A
2-1-1/M82	0.76195
2-1/M82	N/A	N/A
2-6/M82	0.93761	1
3-2/M82	0.79357
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	1.11346
5-3/M82	0.90853	0.642
6-2/M82	0.83363
6-3/M82	N/A	N/A
7-1/M82	1.46455
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	0.81459	0.243
IL2-6/WTpooled	1.04425	1
IL7-5/WTpooled	0.94699	1
IL7-3/WTpooled	0.7857	0.294
IL12-4/WTpooled	0.66833	0.566
IL1-4/WTpooled	0.98983	1
WT/WTpooled	1.00663	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	1.05741	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96615	1
DC3000/delta hrp 6h	1.19567	1
DC3000/delta hrp 12h	0.9494	1
DC3000/delta hrp 24h	0.84579	0.077

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	1.04194	1
Exp 36h	1.1785	0.326
Exp 60h	1.03647	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03273	1
Var 0h	1.02118	1
Var 12h I row2-row1	1.24836	0.506
Var 12h NI row2-row1	1.40857	0.649
Var 36h I row2-row1	0.58674	0.374
Var 36h NI row2-row1	2.63489	1
Var 60h I row2-row1	1.01097	1
Var 60h NI row2-row1	1.18117	0.904
Time course 0hI-0hNI	1.08699	0.537
Time course 12hI-12hNI	0.99383	1
Time course 36hI-36hNI	0.81479	0.039
Time course 60hI-60hNI	2.52309	1

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)	0.91137	0.454
transgenic ySAMdc/azygous control (breaker)	1.51279	0.172
transgenic ySAMdc/azygous control (red)	1.41608	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98944	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99597	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7722	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.15602	1