Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25285	0.485
27DAP/17DAP	0.88881	0.746
39DAP/27DAP	0.98974	0.769
41DAP/39DAP	1.04146	0.894
42DAP/41DAP	1.02208	1
43DAP/42DAP	1.01231	0.937
47DAP/43DAP	0.9632	0.84
52DAP/47DAP	1.01217	0.92
57DAP/52DAP	0.81211	0.692

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98251	0.589
17DAP/reference	0.97512	0.664
27DAP/reference	1.10307	0.15
39DAP/reference	1.09454	0.108
41DAP/reference	1.06967	0.265
42DAP/reference	1.07779	0.276
43DAP/reference	1.1484	0.053
47DAP/reference	1.10924	0.119
52DAP/reference	0.99426	0.618
57DAP/reference	1.03275	0.783

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34125	0.037
27DAP/17DAP	0.91592	0.475
39DAP/27DAP	1.00451	0.874
41DAP/39DAP	1.12901	0.65
42DAP/41DAP	0.97318	0.7
43DAP/42DAP	0.97865	0.774
47DAP/43DAP	1.02925	0.897
52DAP/47DAP	1.21787	0.402
57DAP/52DAP	1.05628	0.745
57DAP/7DAP	0.89092	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84503	0.122
17DAP/reference	0.80558	0.044
27DAP/reference	1.02319	1
39DAP/reference	0.75162	0.018
41DAP/reference	0.72755	0.021
42DAP/reference	0.78413	0.014
43DAP/reference	0.69569	0.011
47DAP/reference	0.95135	0.504
52DAP/reference	0.69818	0.013
57DAP/reference	0.74806	0.038

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96386	0.607
17DAP/reference	1.39349	0.739
27DAP/reference	0.90198	0.352
39DAP/reference	0.8632	0.298
41DAP/reference	1.05334	0.862
42DAP/reference	1.08429	0.422
43DAP/reference	1.29845	0.144
47DAP/reference	1.1322	0.061
52DAP/reference	0.95889	0.469
57DAP/reference	1.06868	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83997	0.036
17DAP/reference	0.94317	0.444
27DAP/reference	0.84468	0.113
39DAP/reference	0.83779	0.024
41DAP/reference	0.99797	0.754
42DAP/reference	0.97496	0.552
43DAP/reference	0.84741	0.079
47DAP/reference	1.07064	0.355
52DAP/reference	1.13804	0.623
57DAP/reference	1.0097	0.873

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46837	0.966
26DAP/20DAP	1.09491	0.778
34DAP/26DAP	0.90271	0.795
51DAP/34DAP	1.71044	0.041
52DAP/51DAP	0.78925	0.151
53DAP/52DAP	1.06818	0.819
55DAP/53DAP	0.87511	0.404
57DAP/55DAP	1.32266	0.643
62DAP/57DAP	1.14616	0.767
68DAP/62DAP	1.33144	0.089
68DAP/14DAP	1.26078	0.043

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84515	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93032	0.491
Mature Green Tomato/Ripe Tomato	1.24244	0.814
Immature Eggplant/Mature Eggplant	0.85233	0.493
Ripe Pepper/Ripe Tomato	1.01702	1
Mature Eggplant/Ripe Tomato	1.06251	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00165	1
1-1-2/M82	0.78465	1
12-2/M82	1.06707	1
12-4/M82	1.09723	1
1-3/M82	1.05765	1
2-1-1/M82	0.4504	1
2-1/M82	1.11157	1
2-6/M82	0.94132	1
3-2/M82	0.88536
4-1-1/M82	1.0813	1
4-1/M82	1.20747	1
4-3-2/M82	0.85732	0.698
4-3/M82	0.9643	0.72
5-3/M82	0.86494	0.642
6-2/M82	0.99476
6-3/M82	0.95924	1
7-1/M82	0.80752
7-2/M82	0.97149	0.565
9-3-2/M82	0.8359	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94297	1
IL2-6/WTpooled	1.13223	1
IL7-5/WTpooled	1.25121	0.75
IL7-3/WTpooled	0.88221	1
IL12-4/WTpooled	1.05064	0.538
IL1-4/WTpooled	0.93977	0.834
WT/WTpooled	1.04235	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	0.93295	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94521	1
DC3000/delta hrp 6h	1.12166	1
DC3000/delta hrp 12h	0.78779	1
DC3000/delta hrp 24h	1.05965	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16785
DC3000 delta B/DC3000 delta AB	0.94457	0.674

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00358	1
Exp 36h	1.05165	1
Exp 60h	0.98742	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9983	1
Var 0h	0.33605	1
Var 12h I row2-row1	0.88141	0.467
Var 12h NI row2-row1	1.11956	0.649
Var 36h I row2-row1	0.8773	0.575
Var 36h NI row2-row1	1.26592	1
Var 60h I row2-row1	1.46394
Var 60h NI row2-row1	0.98316	1
Time course 0hI-0hNI	0.9253	0.408
Time course 12hI-12hNI	0.97183	0.742
Time course 36hI-36hNI	0.89299	0.071
Time course 60hI-60hNI	0.49186	0.005

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)	1.06127	0.297
transgenic ySAMdc/azygous control (breaker)	0.96862	1
transgenic ySAMdc/azygous control (red)	0.96673	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02201	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92378	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93483	1
Manapal/WT (break)	0.94143	1
Manapal/WT (red)	1.19779	0.164