Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.1.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02965	0.847
27DAP/17DAP	0.73774	0.191
39DAP/27DAP	0.94518	0.631
41DAP/39DAP	0.79024	0.264
42DAP/41DAP	1.17245	0.843
43DAP/42DAP	1.00996	0.945
47DAP/43DAP	1.11112	0.825
52DAP/47DAP	0.94766	0.832
57DAP/52DAP	1.05791	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00908	1
17DAP/reference	1.23379	0.1
27DAP/reference	1.58582	0.027
39DAP/reference	1.28743	0.197
41DAP/reference	1.6093	0.085
42DAP/reference	1.06483	0.632
43DAP/reference	0.98473	0.84
47DAP/reference	0.99389	0.636
52DAP/reference	0.96378	0.489
57DAP/reference	1.01404	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9419	0.496
27DAP/17DAP	1.08946	0.699
39DAP/27DAP	0.90213	0.274
41DAP/39DAP	1.23487	0.807
42DAP/41DAP	0.96329	0.67
43DAP/42DAP	0.95582	0.28
47DAP/43DAP	1.01547	0.906
52DAP/47DAP	0.86206	0.087
57DAP/52DAP	0.92743	0.384
57DAP/7DAP	0.83109	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9966	0.758
17DAP/reference	0.87662	0.124
27DAP/reference	0.83174	0.035
39DAP/reference	1.0688	0.601
41DAP/reference	0.92571	0.271
42DAP/reference	0.95678	0.371
43DAP/reference	0.98539	0.555
47DAP/reference	1.22037	0.104
52DAP/reference	1.02347	0.941
57DAP/reference	1.02742	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14879	0.198
17DAP/reference	1.26184	0.086
27DAP/reference	1.27805	0.111
39DAP/reference	1.20859	0.213
41DAP/reference	1.21285	0.255
42DAP/reference	1.0885	0.488
43DAP/reference	0.99101	0.592
47DAP/reference	1.05183	0.274
52DAP/reference	1.18096	0.008
57DAP/reference	1.07294	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88326	0.23
17DAP/reference	1.24993	0.13
27DAP/reference	0.92231	0.376
39DAP/reference	0.87892	0.43
41DAP/reference	1.08454	0.425
42DAP/reference	1.05309	1
43DAP/reference	1.06863	1
47DAP/reference	0.93393	0.335
52DAP/reference	0.83098	0.238
57DAP/reference	1.25407	0.196

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.75093	0.966
26DAP/20DAP	1.27564	0.249
34DAP/26DAP	0.9637	0.909
51DAP/34DAP	1.06273	0.535
52DAP/51DAP	0.93271	1
53DAP/52DAP	0.91696	0.604
55DAP/53DAP	0.86616	0.21
57DAP/55DAP	1.03651	0.975
62DAP/57DAP	1.34334	0.257
68DAP/62DAP	0.978	0.787
68DAP/14DAP	0.68916	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8006	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43042	0.059
Mature Green Tomato/Ripe Tomato	1.50757	0.134
Immature Eggplant/Mature Eggplant	1.07542	0.334
Ripe Pepper/Ripe Tomato	1.01191	1
Mature Eggplant/Ripe Tomato	1.00796	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.05713
12-2/M82	N/A	N/A
12-4/M82	1.07344	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.06706
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.22229	1
4-3/M82	N/A	N/A
5-3/M82	1.6328	0.37
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.89218
7-2/M82	N/A	N/A
9-3-2/M82	1.05684	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07669
IL2-6/WTpooled	0.52544
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96091	1
IL12-4/WTpooled	0.8618	0.478
IL1-4/WTpooled	1.04762	1
WT/WTpooled	0.86947	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	1.20494	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.37756	0.894
DC3000/delta hrp 6h	1.02738	0.95
DC3000/delta hrp 12h	1.26265	1
DC3000/delta hrp 24h	0.7391	0.054

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8677	0.042
DC3000 delta B/DC3000 delta AB	0.81305	0.061

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	1.00143	1
Var 0h	1.12735	1
Var 12h I row2-row1	1.04909	0.795
Var 12h NI row2-row1	1.10971	1
Var 36h I row2-row1	1.22795	0.601
Var 36h NI row2-row1	0.92026	0.645
Var 60h I row2-row1	0.60021
Var 60h NI row2-row1	0.83183	0.292
Time course 0hI-0hNI	0.89902	0.178
Time course 12hI-12hNI	1.04183	0.724
Time course 36hI-36hNI	1.3536	0.012
Time course 60hI-60hNI	1.35816	0.137

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)	0.93971	0.428
transgenic ySAMdc/azygous control (breaker)	0.84693	0.49
transgenic ySAMdc/azygous control (red)	0.91581	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16172	0.044

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09913	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73905	1
Manapal/WT (break)	0.73464	0.299
Manapal/WT (red)	0.7566	0.503