Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.15.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07657	0.964
27DAP/17DAP	0.9973	1
39DAP/27DAP	1.29015	0.575
41DAP/39DAP	0.94917	0.769
42DAP/41DAP	1.04784	1
43DAP/42DAP	0.99521	0.937
47DAP/43DAP	0.98491	0.851
52DAP/47DAP	0.97292	0.89
57DAP/52DAP	1.08578	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92581	0.205
17DAP/reference	0.93603	0.031
27DAP/reference	1.0531	0.548
39DAP/reference	0.91529	0.24
41DAP/reference	0.90055	0.085
42DAP/reference	0.93834	0.091
43DAP/reference	0.90375	0.077
47DAP/reference	0.89529	0.016
52DAP/reference	0.84465	0.084
57DAP/reference	0.88977	0.036

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11127	0.975
27DAP/17DAP	0.93407	0.614
39DAP/27DAP	1.14324	0.465
41DAP/39DAP	1.17956	0.849
42DAP/41DAP	0.87648	0.42
43DAP/42DAP	0.90587	0.336
47DAP/43DAP	1.00197	0.997
52DAP/47DAP	1.05563	0.804
57DAP/52DAP	0.88231	0.391
57DAP/7DAP	0.84616	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80116	0.095
17DAP/reference	0.88029	0.144
27DAP/reference	0.98484	0.571
39DAP/reference	0.76283	0.023
41DAP/reference	0.94584	0.326
42DAP/reference	0.97706	0.482
43DAP/reference	0.78328	0.027
47DAP/reference	1.0009	1
52DAP/reference	0.84408	0.083
57DAP/reference	0.90115	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02085	0.965
17DAP/reference	0.93562	0.399
27DAP/reference	0.88087	0.139
39DAP/reference	0.98198	0.539
41DAP/reference	0.94818	0.331
42DAP/reference	1.00587	0.723
43DAP/reference	1.11176	0.473
47DAP/reference	1.02436	0.89
52DAP/reference	0.83895	0.008
57DAP/reference	0.85096	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80454	0.043
17DAP/reference	0.91898	0.313
27DAP/reference	0.81038	0.067
39DAP/reference	0.85499	0.05
41DAP/reference	0.93157	0.237
42DAP/reference	1.24277	0.589
43DAP/reference	0.92032	0.348
47DAP/reference	0.83943	0.021
52DAP/reference	0.7838	0.101
57DAP/reference	0.76827	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.844	0.399
26DAP/20DAP	0.89519	0.512
34DAP/26DAP	1.20496	0.126
51DAP/34DAP	0.87501	0.466
52DAP/51DAP	1.15248	0.662
53DAP/52DAP	0.90685	0.684
55DAP/53DAP	1.22321	0.234
57DAP/55DAP	1.29897	0.559
62DAP/57DAP	1.37476	0.303
68DAP/62DAP	1.26948	0.455
68DAP/14DAP	1.26521	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.57497	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.45265	0.106
Mature Green Tomato/Ripe Tomato	0.97169	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	8.91926	0.258
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95496	0.944
1-1-2/M82	0.96566	1
12-2/M82	N/A	N/A
12-4/M82	1.21842	0.694
1-3/M82	0.80905
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.86159	1
3-2/M82	0.83609	1
4-1-1/M82	1.03558	1
4-1/M82	0.91384	1
4-3-2/M82	1.18797	0.284
4-3/M82	N/A	N/A
5-3/M82	0.92149	0.642
6-2/M82	N/A	N/A
6-3/M82	1.06513	1
7-1/M82	1.03703	1
7-2/M82	0.91389	0.527
9-3-2/M82	1.0096	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03285
IL2-6/WTpooled	0.90957	0.473
IL7-5/WTpooled	1.00359
IL7-3/WTpooled	0.82326	0.418
IL12-4/WTpooled	0.99702	1
IL1-4/WTpooled	1.01376	1
WT/WTpooled	0.95716	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	1.07482

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99911	1
DC3000/delta hrp 6h	1.1718	1
DC3000/delta hrp 12h	1.0803	1
DC3000/delta hrp 24h	1.00818	0.821

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	1.16021	1
Exp 36h	1.44936	0.489
Exp 60h	0.70674	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01364	1
Var 0h	0.84867	1
Var 12h I row2-row1	1.45628	0.216
Var 12h NI row2-row1	0.87973	0.438
Var 36h I row2-row1	1.49099	1
Var 36h NI row2-row1	0.79902	0.706
Var 60h I row2-row1	1.05365	1
Var 60h NI row2-row1	1.01163	1
Time course 0hI-0hNI	1.14796	0.764
Time course 12hI-12hNI	1.33973	0.242
Time course 36hI-36hNI	1.75234	0.056
Time course 60hI-60hNI	1.46046	0.042

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)	1.19733	0.482
transgenic ySAMdc/azygous control (breaker)	0.89442	1
transgenic ySAMdc/azygous control (red)	1.11482	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00301	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10644	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.3848	0.14
Manapal/WT (break)	0.99744	1
Manapal/WT (red)	0.44908	0.274