Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.7.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95603	0.683
27DAP/17DAP	1.31068	0.712
39DAP/27DAP	1.07367	0.907
41DAP/39DAP	0.91957	0.659
42DAP/41DAP	1.27781	0.595
43DAP/42DAP	1.05245	1
47DAP/43DAP	1.0607	0.756
52DAP/47DAP	0.88347	0.67
57DAP/52DAP	1.09533	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44476	0.015
17DAP/reference	1.18662	0.148
27DAP/reference	1.21542	0.033
39DAP/reference	1.22864	0.033
41DAP/reference	1.22493	0.171
42DAP/reference	1.13259	0.019
43DAP/reference	1.07015	0.646
47DAP/reference	0.94896	0.224
52DAP/reference	0.69476	0.044
57DAP/reference	0.79771	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88156	0.35
27DAP/17DAP	0.93657	0.782
39DAP/27DAP	1.01683	0.854
41DAP/39DAP	0.91987	0.53
42DAP/41DAP	1.09286	0.615
43DAP/42DAP	1.05744	0.585
47DAP/43DAP	0.96661	0.846
52DAP/47DAP	1.03422	0.868
57DAP/52DAP	0.9945	0.852
57DAP/7DAP	0.97989	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92233	0.326
17DAP/reference	0.85644	0.22
27DAP/reference	1.00838	1
39DAP/reference	1.06705	0.601
41DAP/reference	0.92707	0.259
42DAP/reference	0.92279	0.304
43DAP/reference	0.98963	0.502
47DAP/reference	1.03876	0.932
52DAP/reference	1.2214	0.247
57DAP/reference	1.15341	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17426	0.308
17DAP/reference	1.31171	0.107
27DAP/reference	1.22392	0.212
39DAP/reference	0.9664	0.485
41DAP/reference	1.04671	1
42DAP/reference	0.98676	0.534
43DAP/reference	1.13576	0.633
47DAP/reference	1.03764	0.916
52DAP/reference	0.97976	0.619
57DAP/reference	0.97031	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02086	0.804
17DAP/reference	1.14259	0.775
27DAP/reference	1.12456	0.596
39DAP/reference	1.34198	0.031
41DAP/reference	1.22605	0.286
42DAP/reference	1.23166	0.327
43DAP/reference	1.39586	0.085
47DAP/reference	1.04373	0.655
52DAP/reference	0.69376	0.132
57DAP/reference	1.09249	0.2

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09991	0.966
26DAP/20DAP	0.8128	0.512
34DAP/26DAP	1.14467	0.542
51DAP/34DAP	0.87157	0.121
52DAP/51DAP	1.07183	0.626
53DAP/52DAP	0.88629	0.426
55DAP/53DAP	1.23035	0.068
57DAP/55DAP	1.03424	1
62DAP/57DAP	1.23566	0.021
68DAP/62DAP	0.75697	0.263
68DAP/14DAP	0.83772	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01106	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.22515	0.058
Mature Green Tomato/Ripe Tomato	0.83452	0.347
Immature Eggplant/Mature Eggplant	0.81939	0.067
Ripe Pepper/Ripe Tomato	0.69621	0.293
Mature Eggplant/Ripe Tomato	3.48566	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.94079	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	0.47025
2-6/M82	1.17727
3-2/M82	N/A	N/A
4-1-1/M82	0.73456
4-1/M82	N/A	N/A
4-3-2/M82	1.26594	1
4-3/M82	0.94699	1
5-3/M82	0.87723	0.364
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.18249	1
7-2/M82	1.24024
9-3-2/M82	1.01307	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.00941
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.52115	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94642	1
DC3000/delta hrp 6h	1.14535	0.978
DC3000/delta hrp 12h	1.41082	1
DC3000/delta hrp 24h	0.50267	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86496	0.538
DC3000 delta B/DC3000 delta AB	1.02835	0.609

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	1.01227	1
Var 0h	0.68862	0.933
Var 12h I row2-row1	1.01976	1
Var 12h NI row2-row1	1.09674	0.649
Var 36h I row2-row1	1.14113	0.908
Var 36h NI row2-row1	0.63517	0.478
Var 60h I row2-row1	0.91898	0.952
Var 60h NI row2-row1	0.80465	0.292
Time course 0hI-0hNI	1.09176	0.227
Time course 12hI-12hNI	1.29951	0.011
Time course 36hI-36hNI	2.69506	0.005
Time course 60hI-60hNI	6.13182	0.008

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)	1.11016	0.3
transgenic ySAMdc/azygous control (breaker)	0.86792	0.49
transgenic ySAMdc/azygous control (red)	1.13916	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09207	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10579	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.61381	0.14
Manapal/WT (break)	2.06516	0.13
Manapal/WT (red)	1.56784	0.134