Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76476	0.11
27DAP/17DAP	1.52651	0.688
39DAP/27DAP	0.79938	0.529
41DAP/39DAP	0.88645	0.632
42DAP/41DAP	1.08538	0.954
43DAP/42DAP	0.94425	0.888
47DAP/43DAP	0.71301	0.208
52DAP/47DAP	1.45346	0.244
57DAP/52DAP	0.99412	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13382	0.522
17DAP/reference	1.05163	0.427
27DAP/reference	1.08524	0.314
39DAP/reference	0.95067	0.455
41DAP/reference	0.88795	0.267
42DAP/reference	1.00533	0.628
43DAP/reference	0.86122	0.287
47DAP/reference	0.96532	0.345
52DAP/reference	0.9634	0.371
57DAP/reference	1.03336	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71144	0.06
27DAP/17DAP	1.3047	0.121
39DAP/27DAP	0.69497	0.029
41DAP/39DAP	1.26624	0.091
42DAP/41DAP	0.92877	0.399
43DAP/42DAP	0.95282	0.618
47DAP/43DAP	0.93505	0.701
52DAP/47DAP	2.76431	0.033
57DAP/52DAP	2.98805	0.029
57DAP/7DAP	0.94367	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37773	0.163
17DAP/reference	0.89008	0.124
27DAP/reference	0.95651	0.283
39DAP/reference	0.77277	0.027
41DAP/reference	0.82477	0.052
42DAP/reference	0.77687	0.04
43DAP/reference	0.97488	0.403
47DAP/reference	0.89923	0.383
52DAP/reference	0.826	0.061
57DAP/reference	1.54963	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21367	0.284
17DAP/reference	1.00564	0.766
27DAP/reference	0.9265	0.292
39DAP/reference	0.89859	0.168
41DAP/reference	1.14709	0.234
42DAP/reference	0.94461	0.321
43DAP/reference	0.95359	0.468
47DAP/reference	1.01794	1
52DAP/reference	1.04385	0.882
57DAP/reference	1.00996	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81293	0.135
17DAP/reference	0.94709	0.452
27DAP/reference	1.01916	0.934
39DAP/reference	0.90277	0.063
41DAP/reference	0.86235	0.058
42DAP/reference	0.91702	0.361
43DAP/reference	0.96383	0.568
47DAP/reference	0.90566	0.215
52DAP/reference	1.4389	0.509
57DAP/reference	0.8475	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91578	1
26DAP/20DAP	2.66404	0.136
34DAP/26DAP	1.60778	0.819
51DAP/34DAP	0.93282	0.66
52DAP/51DAP	2.51668	0.033
53DAP/52DAP	1.0163	0.901
55DAP/53DAP	1.44811	0.039
57DAP/55DAP	0.58846	0.053
62DAP/57DAP	0.42826	0.05
68DAP/62DAP	1.96859	0.025
68DAP/14DAP	2.25028	0.065

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.37654	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.25045	1
Mature Green Tomato/Ripe Tomato	0.94199	0.774
Immature Eggplant/Mature Eggplant	0.93382	0.493
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.43628	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.30886
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	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	0.89583
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90034	0.321
IL2-6/WTpooled	0.68364	0.383
IL7-5/WTpooled	1.09103	1
IL7-3/WTpooled	0.88346	1
IL12-4/WTpooled	0.7661	0.543
IL1-4/WTpooled	0.82572	0.562
WT/WTpooled	1.04948	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	1.2597	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05765	0.921
DC3000/delta hrp 6h	1.00167	0.95
DC3000/delta hrp 12h	1.08125	1
DC3000/delta hrp 24h	0.87234	0.19

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94562	0.691
DC3000 delta B/DC3000 delta AB	0.97729	0.873

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80448	1
Exp 36h	0.75847	0.699
Exp 60h	0.85436	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9981	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.86274	0.338
Var 12h NI row2-row1	1.03638	1
Var 36h I row2-row1	0.91295	1
Var 36h NI row2-row1	1.96337	1
Var 60h I row2-row1	0.9641	0.952
Var 60h NI row2-row1	1.00888	1
Time course 0hI-0hNI	0.99145	1
Time course 12hI-12hNI	0.75884	0.033
Time course 36hI-36hNI	0.53115	0.023
Time course 60hI-60hNI	0.26558	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)	1.22756	0.372
transgenic ySAMdc/azygous control (breaker)	0.79196	0.251
transgenic ySAMdc/azygous control (red)	1.40225	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89815	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00382	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02564	1
Manapal/WT (break)	1.02153	1
Manapal/WT (red)	0.76545	0.274