Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.9.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95012	0.671
27DAP/17DAP	1.03896	0.92
39DAP/27DAP	0.97969	0.749
41DAP/39DAP	1.13926	0.549
42DAP/41DAP	1.11737	0.916
43DAP/42DAP	1.0539	1
47DAP/43DAP	1.14648	0.769
52DAP/47DAP	0.86365	0.618
57DAP/52DAP	1.01921	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21754	0.11
17DAP/reference	0.96103	0.567
27DAP/reference	0.88448	0.032
39DAP/reference	1.03822	0.615
41DAP/reference	0.89097	0.154
42DAP/reference	1.11432	0.039
43DAP/reference	1.13922	0.04
47DAP/reference	1.02904	0.666
52DAP/reference	0.87415	0.147
57DAP/reference	1.03962	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91549	0.238
27DAP/17DAP	1.05137	0.811
39DAP/27DAP	1.06787	0.534
41DAP/39DAP	1.14486	0.14
42DAP/41DAP	0.92991	0.425
43DAP/42DAP	1.04963	0.25
47DAP/43DAP	1.01941	0.884
52DAP/47DAP	0.98985	0.925
57DAP/52DAP	0.94526	0.531
57DAP/7DAP	0.92685	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11594	0.511
17DAP/reference	0.92281	0.192
27DAP/reference	1.17749	0.026
39DAP/reference	1.06361	0.865
41DAP/reference	1.05075	0.491
42DAP/reference	1.37894	0.059
43DAP/reference	0.89267	0.059
47DAP/reference	1.12819	0.195
52DAP/reference	1.19893	0.266
57DAP/reference	1.02413	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3798	0.049
17DAP/reference	1.08637	0.243
27DAP/reference	1.11855	0.338
39DAP/reference	0.97982	0.485
41DAP/reference	1.09137	0.831
42DAP/reference	1.22046	0.051
43DAP/reference	1.32517	0.096
47DAP/reference	1.41782	0.014
52DAP/reference	0.78894	0.121
57DAP/reference	1.02132	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30769	0.02
17DAP/reference	0.97228	0.624
27DAP/reference	0.98	0.594
39DAP/reference	1.04026	0.836
41DAP/reference	0.99916	0.826
42DAP/reference	0.94775	0.361
43DAP/reference	1.05851	0.895
47DAP/reference	0.97729	0.478
52DAP/reference	1.01033	0.821
57DAP/reference	0.99401	0.79

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89042	0.915
26DAP/20DAP	0.99858	1
34DAP/26DAP	0.95308	0.693
51DAP/34DAP	0.9992	0.957
52DAP/51DAP	0.98384	1
53DAP/52DAP	1.04028	0.768
55DAP/53DAP	1.09107	0.634
57DAP/55DAP	1.23643	0.694
62DAP/57DAP	0.87638	0.681
68DAP/62DAP	0.882	0.641
68DAP/14DAP	0.703	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91862	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76108	0.265
Mature Green Tomato/Ripe Tomato	0.87208	0.132
Immature Eggplant/Mature Eggplant	1.30871	0.055
Ripe Pepper/Ripe Tomato	0.84454	0.293
Mature Eggplant/Ripe Tomato	0.67064	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91762
1-1-2/M82	0.90652	0.754
12-2/M82	N/A	N/A
12-4/M82	0.78344
1-3/M82	N/A	N/A
2-1-1/M82	0.9814
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.16002
4-1-1/M82	N/A	N/A
4-1/M82	1.16964
4-3-2/M82	1.02964	1
4-3/M82	N/A	N/A
5-3/M82	0.81453	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.0274	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93035	0.321
IL2-6/WTpooled	0.80494	1
IL7-5/WTpooled	0.94525	1
IL7-3/WTpooled	1.36156	0.362
IL12-4/WTpooled	0.94638	1
IL1-4/WTpooled	1.04885	1
WT/WTpooled	1.06295	0.686

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	1.42028	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98746	1
DC3000/delta hrp 6h	1.04952	1
DC3000/delta hrp 12h	1.01893	1
DC3000/delta hrp 24h	0.54867	0.036

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04805	0.313
DC3000 delta B/DC3000 delta AB	1.35996	0.086

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06443	1
Exp 36h	1.65667	0.349
Exp 60h	1.41592	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01956	1
Var 0h	1.19971	0.594
Var 12h I row2-row1	0.7908	0.467
Var 12h NI row2-row1	1.44526	0.281
Var 36h I row2-row1	1.31185	0.742
Var 36h NI row2-row1	0.54816	0.478
Var 60h I row2-row1	0.8849	0.582
Var 60h NI row2-row1	0.81632	0.458
Time course 0hI-0hNI	1.07162	0.799
Time course 12hI-12hNI	1.12022	0.672
Time course 36hI-36hNI	3.18129	0.004
Time course 60hI-60hNI	11.9562	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)	1.06871	0.289
transgenic ySAMdc/azygous control (breaker)	1.10778	1
transgenic ySAMdc/azygous control (red)	1.24523	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09704	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.34303	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12062	0.307
Manapal/WT (break)	1.14209	1
Manapal/WT (red)	1.23183	1