Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07401	0.893
27DAP/17DAP	0.81001	0.494
39DAP/27DAP	0.96178	0.719
41DAP/39DAP	0.92018	0.727
42DAP/41DAP	1.05181	1
43DAP/42DAP	1.02677	0.937
47DAP/43DAP	1.76962	0.776
52DAP/47DAP	1.00064	0.907
57DAP/52DAP	1.05659	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19391	0.197
17DAP/reference	1.20378	0.015
27DAP/reference	1.0472	0.863
39DAP/reference	0.9874	0.885
41DAP/reference	1.27051	0.022
42DAP/reference	0.86243	0.25
43DAP/reference	0.9665	0.84
47DAP/reference	0.94927	0.445
52DAP/reference	0.95414	0.515
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83821	0.158
27DAP/17DAP	1.28009	0.537
39DAP/27DAP	0.63455	0.069
41DAP/39DAP	1.25146	0.455
42DAP/41DAP	0.80224	0.149
43DAP/42DAP	0.88433	0.431
47DAP/43DAP	1.14008	0.973
52DAP/47DAP	0.86211	0.42
57DAP/52DAP	1.03616	0.885
57DAP/7DAP	0.55443	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4508	0.144
17DAP/reference	1.43989	0.07
27DAP/reference	1.53328	0.018
39DAP/reference	1.18237	0.013
41DAP/reference	1.32985	0.131
42DAP/reference	1.24629	0.174
43DAP/reference	1.32253	0.087
47DAP/reference	0.96385	0.504
52DAP/reference	1.22994	0.229
57DAP/reference	1.23049	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25327	0.103
17DAP/reference	1.27494	0.035
27DAP/reference	1.03008	0.822
39DAP/reference	1.10787	0.412
41DAP/reference	0.98982	0.601
42DAP/reference	0.91857	0.289
43DAP/reference	0.99233	0.721
47DAP/reference	0.89001	0.047
52DAP/reference	1.18294	0.208
57DAP/reference	1.19377	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65785	0.023
17DAP/reference	1.14836	0.283
27DAP/reference	1.11131	0.207
39DAP/reference	1.2818	0.14
41DAP/reference	1.18305	0.181
42DAP/reference	1.1407	0.327
43DAP/reference	1.04912	0.617
47DAP/reference	0.85234	0.034
52DAP/reference	1.79402	0.272
57DAP/reference	0.99509	0.661

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.0225	0.786
26DAP/20DAP	1.10452	0.806
34DAP/26DAP	0.75145	0.479
51DAP/34DAP	0.78783	0.688
52DAP/51DAP	1.03405	0.888
53DAP/52DAP	1.27887	0.398
55DAP/53DAP	1.12778	0.904
57DAP/55DAP	0.65599	0.059
62DAP/57DAP	1.1128	0.767
68DAP/62DAP	21.0004	0.533
68DAP/14DAP	0.85099	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.42513	0.036

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.8081
Mature Green Tomato/Ripe Tomato	4.41772	0.523
Immature Eggplant/Mature Eggplant	0.46557	0.064
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	8.24771	0.373

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	0.87018	1
1-3/M82	N/A	N/A
2-1-1/M82	0.37245
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	0.87928
7-1/M82	N/A	N/A
7-2/M82	0.99362
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8782	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.45752
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.83034	0.435
WT/WTpooled	N/A	N/A

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	1.14205	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98035	1
DC3000/delta hrp 6h	1.09387	1
DC3000/delta hrp 12h	1.02208	1
DC3000/delta hrp 24h	0.8885	0.285

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	0.90599

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85343	0.265
Exp 36h	0.90451	0.589
Exp 60h	0.86766	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9079	1
Var 0h	1.14281	0.594
Var 12h I row2-row1	0.75458	0.344
Var 12h NI row2-row1	1.13494	1
Var 36h I row2-row1	0.92627	0.805
Var 36h NI row2-row1	1.36119	1
Var 60h I row2-row1	1.13269	0.543
Var 60h NI row2-row1	1.02453	1
Time course 0hI-0hNI	0.93465	0.687
Time course 12hI-12hNI	0.82687	0.048
Time course 36hI-36hNI	0.71525	0.059
Time course 60hI-60hNI	0.46327	0.006

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)	1.02459	0.397
transgenic ySAMdc/azygous control (breaker)	1.55347	0.248
transgenic ySAMdc/azygous control (red)	1.08934	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90807	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22278	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27694	0.096
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.67666	0.164