Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03358	0.997
27DAP/17DAP	1.03335	1
39DAP/27DAP	0.69288	0.146
41DAP/39DAP	1.40866	0.416
42DAP/41DAP	0.92268	1
43DAP/42DAP	0.96989	0.895
47DAP/43DAP	1.22709	0.196
52DAP/47DAP	1.10761	0.902
57DAP/52DAP	0.98531	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93542	0.344
17DAP/reference	0.99349	0.858
27DAP/reference	1.07548	0.375
39DAP/reference	1.06538	0.119
41DAP/reference	0.95457	0.542
42DAP/reference	0.98383	0.348
43DAP/reference	1.06441	0.547
47DAP/reference	0.88506	0.016
52DAP/reference	0.8092	0.043
57DAP/reference	0.87739	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93329	0.542
27DAP/17DAP	1.07701	0.969
39DAP/27DAP	1.29172	0.19
41DAP/39DAP	1.30026	0.807
42DAP/41DAP	1.07642	0.81
43DAP/42DAP	1.07333	0.746
47DAP/43DAP	0.96537	0.902
52DAP/47DAP	1.27133	0.449
57DAP/52DAP	0.81333	0.221
57DAP/7DAP	1.13732	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95409	0.27
17DAP/reference	0.96761	0.167
27DAP/reference	0.94958	0.025
39DAP/reference	1.02303	0.46
41DAP/reference	0.8951	0.056
42DAP/reference	0.92913	0.032
43DAP/reference	1.01367	0.873
47DAP/reference	0.77331	0.03
52DAP/reference	0.90989	0.179
57DAP/reference	0.98274	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0738	0.289
17DAP/reference	0.96035	0.399
27DAP/reference	0.85959	0.144
39DAP/reference	0.84185	0.054
41DAP/reference	0.83783	0.06
42DAP/reference	0.9445	0.355
43DAP/reference	0.95884	0.414
47DAP/reference	1.03543	0.731
52DAP/reference	0.94823	0.239
57DAP/reference	1.01663	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95057	0.197
17DAP/reference	1.02571	0.784
27DAP/reference	1.00319	1
39DAP/reference	0.97521	0.271
41DAP/reference	0.94482	0.064
42DAP/reference	0.89652	0.22
43DAP/reference	0.91194	0.281
47DAP/reference	0.9147	0.139
52DAP/reference	0.9899	0.8
57DAP/reference	0.67061	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04057	0.966
26DAP/20DAP	1.0248	1
34DAP/26DAP	1.34983	0.542
51DAP/34DAP	1.07355	0.962
52DAP/51DAP	1.14358	0.821
53DAP/52DAP	0.75986	0.221
55DAP/53DAP	0.89274	0.686
57DAP/55DAP	1.30992	0.881
62DAP/57DAP	1.27345	0.622
68DAP/62DAP	0.99935	0.885
68DAP/14DAP	1.04604	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65511	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.04152	0.881
Immature Eggplant/Mature Eggplant	1.07883
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.17508	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08317	1
1-1-2/M82	0.97218	1
12-2/M82	1.22496	1
12-4/M82	0.97255	1
1-3/M82	0.91517	0.501
2-1-1/M82	1.12711	0.689
2-1/M82	1.57019	1
2-6/M82	1.13396	0.505
3-2/M82	0.93965
4-1-1/M82	0.94399	1
4-1/M82	0.99518	1
4-3-2/M82	0.8209	0.487
4-3/M82	0.96365	1
5-3/M82	0.99954	1
6-2/M82	1.04841	1
6-3/M82	0.95344	1
7-1/M82	1.08833	0.539
7-2/M82	1.00832	1
9-3-2/M82	0.96299	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.67909	0.247
IL2-6/WTpooled	1.02731	1
IL7-5/WTpooled	0.65885	0.559
IL7-3/WTpooled	0.69576	0.293
IL12-4/WTpooled	0.69818	0.71
IL1-4/WTpooled	0.89582	0.699
WT/WTpooled	1.10888	0.999

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94124	1
DC3000/delta hrp 6h	0.79897	0.95
DC3000/delta hrp 12h	1.14237	1
DC3000/delta hrp 24h	1.00575	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	0.88417

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.73994	1
Exp 36h	1.03561	1
Exp 60h	0.67137	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98854	1
Var 0h	1.05943	0.226
Var 12h I row2-row1	0.96973	1
Var 12h NI row2-row1	0.87832	0.488
Var 36h I row2-row1	0.91235	1
Var 36h NI row2-row1	0.55916	0.549
Var 60h I row2-row1	0.99709	1
Var 60h NI row2-row1	0.72153
Time course 0hI-0hNI	1.29078	0.833
Time course 12hI-12hNI	0.88235	0.3
Time course 36hI-36hNI	0.85587	0.156
Time course 60hI-60hNI	0.9717	0.646

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)	0.92079	0.33
transgenic ySAMdc/azygous control (breaker)	1.65417	0.166
transgenic ySAMdc/azygous control (red)	1.18355	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.034	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.51172	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73219	1
Manapal/WT (break)	1.09885	1
Manapal/WT (red)	0.81595	0.181