Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94239	0.699
27DAP/17DAP	0.79092	0.658
39DAP/27DAP	0.74814	0.335
41DAP/39DAP	0.9658	0.868
42DAP/41DAP	0.96362	1
43DAP/42DAP	1.49048	0.726
47DAP/43DAP	0.97015	0.868
52DAP/47DAP	0.80955	0.557
57DAP/52DAP	1.03829	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99683	0.756
17DAP/reference	1.02784	0.874
27DAP/reference	0.96884	0.595
39DAP/reference	1.18233	0.119
41DAP/reference	1.07964	0.624
42DAP/reference	1.00114	0.547
43DAP/reference	1.17606	0.325
47DAP/reference	1.2953	0.005
52DAP/reference	1.01529	1
57DAP/reference	1.07321	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04692	1
27DAP/17DAP	1.13594	0.686
39DAP/27DAP	0.93853	0.737
41DAP/39DAP	1.34371	0.753
42DAP/41DAP	0.84466	0.318
43DAP/42DAP	1.63138	0.664
47DAP/43DAP	0.73622	0.239
52DAP/47DAP	0.96282	0.898
57DAP/52DAP	0.9032	0.519
57DAP/7DAP	1.47035	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72063	0.1
17DAP/reference	0.84528	0.082
27DAP/reference	0.97533	0.494
39DAP/reference	0.79956	0.083
41DAP/reference	0.82343	0.139
42DAP/reference	0.86393	0.2
43DAP/reference	0.87138	0.095
47DAP/reference	0.84083	0.128
52DAP/reference	0.97923	0.523
57DAP/reference	0.88267	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05232	0.943
17DAP/reference	1.14103	0.459
27DAP/reference	0.89772	0.181
39DAP/reference	0.98592	0.539
41DAP/reference	0.8779	0.068
42DAP/reference	1.16039	0.555
43DAP/reference	1.60723	0.167
47DAP/reference	1.10983	0.212
52DAP/reference	0.90865	0.22
57DAP/reference	0.90884	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75585	0.05
17DAP/reference	1.00746	0.918
27DAP/reference	0.89667	0.097
39DAP/reference	0.94157	0.36
41DAP/reference	0.98045	0.512
42DAP/reference	0.87449	0.22
43DAP/reference	0.97117	0.484
47DAP/reference	1.36939	0.018
52DAP/reference	1.04807	0.838
57DAP/reference	0.95019	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33736	0.966
26DAP/20DAP	1.45409	0.635
34DAP/26DAP	1.09109	1
51DAP/34DAP	0.89322	0.649
52DAP/51DAP	94.6209	0.454
53DAP/52DAP	1.45812	0.489
55DAP/53DAP	0.99257	0.876
57DAP/55DAP	1.11818	0.944
62DAP/57DAP	1.07649	1
68DAP/62DAP	1.0429	0.956
68DAP/14DAP	0.95363	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.88826	0.627

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	N/A	N/A
Ripe Pepper/Ripe Tomato	0.16325
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.90023
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.90532
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85758
IL2-6/WTpooled	0.87128	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10414	0.362
IL12-4/WTpooled	1.03163	0.891
IL1-4/WTpooled	1.02926	1
WT/WTpooled	0.92094	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	0.88214

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92864	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08704	1
DC3000/delta hrp 24h	0.9086	0.379

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	0.96002	1
Exp 36h	0.6936	0.661
Exp 60h	1.11276	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.1887	1
Var 0h	1.03996	1
Var 12h I row2-row1	1.83142	0.443
Var 12h NI row2-row1	1.13505	1
Var 36h I row2-row1	0.73109	1
Var 36h NI row2-row1	0.64473	0.645
Var 60h I row2-row1	1.02905	1
Var 60h NI row2-row1	0.71206	0.866
Time course 0hI-0hNI	1.04207	0.852
Time course 12hI-12hNI	1.2392	0.201
Time course 36hI-36hNI	0.98335	0.589
Time course 60hI-60hNI	1.2185	0.426

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)	4.41484	0.408
transgenic ySAMdc/azygous control (breaker)	0.46956	0.118
transgenic ySAMdc/azygous control (red)	0.98097	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00877	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17233	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.70976	0.14
Manapal/WT (break)	1.91857	0.13
Manapal/WT (red)	N/A	N/A