Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.7.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89984	0.436
27DAP/17DAP	0.52251	0.522
39DAP/27DAP	1.67145	0.902
41DAP/39DAP	0.56833	0.148
42DAP/41DAP	1.50427	0.994
43DAP/42DAP	1.06178	0.937
47DAP/43DAP	1.05132	0.856
52DAP/47DAP	1.2386	0.982
57DAP/52DAP	1.36175	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09155	0.188
17DAP/reference	1.06097	0.138
27DAP/reference	1.06016	0.468
39DAP/reference	1.07412	0.125
41DAP/reference	1.15589	0.043
42DAP/reference	1.13449	0.009
43DAP/reference	1.03084	0.325
47DAP/reference	1.0999	0.34
52DAP/reference	1.07874	0.43
57DAP/reference	1.05263	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00119	0.826
27DAP/17DAP	0.76407	0.144
39DAP/27DAP	0.7182	0.032
41DAP/39DAP	1.09338	1
42DAP/41DAP	1.08042	0.872
43DAP/42DAP	0.81046	0.038
47DAP/43DAP	1.04827	0.805
52DAP/47DAP	1.03796	0.956
57DAP/52DAP	0.84424	0.258
57DAP/7DAP	0.53568	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96552	0.445
17DAP/reference	1.12835	0.049
27DAP/reference	1.23989	0.041
39DAP/reference	1.08943	0.186
41DAP/reference	1.09419	0.475
42DAP/reference	1.15709	0.132
43DAP/reference	1.15996	0.178
47DAP/reference	1.05615	0.761
52DAP/reference	1.17478	0.229
57DAP/reference	1.13623	0.331

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06525	0.65
17DAP/reference	1.18003	0.048
27DAP/reference	1.31905	0.082
39DAP/reference	1.35045	0.03
41DAP/reference	1.056	0.799
42DAP/reference	1.14729	0.214
43DAP/reference	1.17583	0.331
47DAP/reference	1.18167	0.041
52DAP/reference	1.27939	0.013
57DAP/reference	1.35386	0.029

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06198	0.775
17DAP/reference	1.25228	0.088
27DAP/reference	1.15474	0.34
39DAP/reference	1.19348	0.028
41DAP/reference	1.19956	0.065
42DAP/reference	1.12541	0.347
43DAP/reference	1.16484	0.186
47DAP/reference	1.14633	0.115
52DAP/reference	1.17623	0.161
57DAP/reference	1.14506	0.501

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9831	1
26DAP/20DAP	1.29446	0.145
34DAP/26DAP	0.81156	0.381
51DAP/34DAP	0.79975	0.158
52DAP/51DAP	1.09612	0.616
53DAP/52DAP	0.80332	0.1
55DAP/53DAP	0.91079	0.619
57DAP/55DAP	1.00893	0.93
62DAP/57DAP	0.97363	1
68DAP/62DAP	0.81293	0.144
68DAP/14DAP	0.78864	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94426	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22784	0.287
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.7532	0.089
Ripe Pepper/Ripe Tomato	0.36808	0.293
Mature Eggplant/Ripe Tomato	0.27867	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27286	0.877
1-1-2/M82	1.05959	1
12-2/M82	1.20023
12-4/M82	1.3633	0.611
1-3/M82	0.88707	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.77586	0.501
3-2/M82	0.84074
4-1-1/M82	0.90045	1
4-1/M82	1.16569
4-3-2/M82	N/A	N/A
4-3/M82	0.95244	1
5-3/M82	1.10704	1
6-2/M82	N/A	N/A
6-3/M82	0.75373	0.916
7-1/M82	0.84599
7-2/M82	0.70432	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98137	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93054	1
IL12-4/WTpooled	0.83124	1
IL1-4/WTpooled	0.94334
WT/WTpooled	0.94211	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	0.95899	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09002	0.921
DC3000/delta hrp 6h	0.98037	0.95
DC3000/delta hrp 12h	1.24319	1
DC3000/delta hrp 24h	1.0852	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.65972	0.023
DC3000 delta B/DC3000 delta AB	0.59024	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00307	1
Var 0h	0.55611	0.339
Var 12h I row2-row1	0.75597	0.363
Var 12h NI row2-row1	0.85391	0.466
Var 36h I row2-row1	1.05846	1
Var 36h NI row2-row1	1.04241	1
Var 60h I row2-row1	1.25776	0.562
Var 60h NI row2-row1	1.12866	0.904
Time course 0hI-0hNI	0.98196	0.945
Time course 12hI-12hNI	0.97771	0.87
Time course 36hI-36hNI	0.9186	0.25
Time course 60hI-60hNI	0.18455	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)	0.93338	0.391
transgenic ySAMdc/azygous control (breaker)	1.88165	0.178
transgenic ySAMdc/azygous control (red)	1.28842	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98228	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.53902	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2225	0.14
Manapal/WT (break)	1.12145	0.381
Manapal/WT (red)	1.29803	0.222