Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.11.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05993	0.811
27DAP/17DAP	0.84877	0.494
39DAP/27DAP	0.92925	0.682
41DAP/39DAP	1.39788	0.728
42DAP/41DAP	1.24998	0.712
43DAP/42DAP	0.74531	0.554
47DAP/43DAP	0.86529	0.568
52DAP/47DAP	1.35752	0.61
57DAP/52DAP	0.94608	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99494	0.743
17DAP/reference	1.01757	0.717
27DAP/reference	0.98661	0.683
39DAP/reference	0.95186	0.333
41DAP/reference	1.00392	1
42DAP/reference	0.94481	0.033
43DAP/reference	0.96139	0.331
47DAP/reference	0.86645	0.001
52DAP/reference	0.91872	0.131
57DAP/reference	0.90035	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13362	0.826
27DAP/17DAP	1.31125	0.245
39DAP/27DAP	1.11131	0.57
41DAP/39DAP	1.09352	0.868
42DAP/41DAP	0.99685	0.858
43DAP/42DAP	1.43689	0.134
47DAP/43DAP	1.2211	0.161
52DAP/47DAP	1.13069	0.734
57DAP/52DAP	2.43653	0.029
57DAP/7DAP	1.6307	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9864	0.613
17DAP/reference	0.9626	0.389
27DAP/reference	0.85815	0.117
39DAP/reference	0.83315	0.049
41DAP/reference	0.7683	0.018
42DAP/reference	0.74379	0.032
43DAP/reference	0.9433	0.351
47DAP/reference	0.83153	0.168
52DAP/reference	0.77007	0.053
57DAP/reference	0.92312	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07085	0.41
17DAP/reference	1.05068	0.674
27DAP/reference	0.98864	0.576
39DAP/reference	1.00967	1
41DAP/reference	0.96937	0.403
42DAP/reference	0.92321	0.121
43DAP/reference	1.05586	0.582
47DAP/reference	0.99566	0.678
52DAP/reference	1.00517	1
57DAP/reference	1.07701	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14528	0.196
17DAP/reference	0.95975	0.56
27DAP/reference	1.11324	0.447
39DAP/reference	1.06253	0.33
41DAP/reference	0.96777	0.56
42DAP/reference	1.00451	0.816
43DAP/reference	1.26486	0.452
47DAP/reference	0.97079	0.465
52DAP/reference	0.8943	0.216
57DAP/reference	0.72754	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9465	1
26DAP/20DAP	1.25824	0.477
34DAP/26DAP	1.32606	1
51DAP/34DAP	1.12516	0.936
52DAP/51DAP	0.76702	1
53DAP/52DAP	0.8556	0.311
55DAP/53DAP	0.78483	0.203
57DAP/55DAP	0.91354	0.647
62DAP/57DAP	1.1696	0.133
68DAP/62DAP	1.06867	0.89
68DAP/14DAP	0.85443	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19761	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.87655	0.384
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.13511
Ripe Pepper/Ripe Tomato	0.8423	1
Mature Eggplant/Ripe Tomato	0.51511	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11822
12-2/M82	N/A	N/A
12-4/M82	1.35951	0.611
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.54826
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	0.91526

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86925	0.321
IL2-6/WTpooled	1.05722	1
IL7-5/WTpooled	1.08109
IL7-3/WTpooled	1.04323	1
IL12-4/WTpooled	1.06584	0.737
IL1-4/WTpooled	1.00681	1
WT/WTpooled	1.00248	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	1.26109	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95815	0.868
DC3000/delta hrp 6h	1.08021	1
DC3000/delta hrp 12h	1.0036	1
DC3000/delta hrp 24h	0.98557	0.84

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	0.98017	1
Exp 36h	1.14887	0.489
Exp 60h	1.16001	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.2002	1
Var 0h	1.00432	0.98
Var 12h I row2-row1	0.99645	1
Var 12h NI row2-row1	0.93197
Var 36h I row2-row1	0.74085	1
Var 36h NI row2-row1	0.65082	0.584
Var 60h I row2-row1	0.99501	1
Var 60h NI row2-row1	0.96457	1
Time course 0hI-0hNI	0.91485	0.643
Time course 12hI-12hNI	1.06796	0.788
Time course 36hI-36hNI	1.0566	0.722
Time course 60hI-60hNI	1.02659	0.673

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)	0.99977	1
transgenic ySAMdc/azygous control (breaker)	0.85373	0.251
transgenic ySAMdc/azygous control (red)	1.14733	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97739	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01257	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77246	0.172
Manapal/WT (break)	1.00502	1
Manapal/WT (red)	1.13406	0.413