Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90701	0.551
27DAP/17DAP	1.06446	1
39DAP/27DAP	0.88671	0.583
41DAP/39DAP	1.33987	0.334
42DAP/41DAP	1.14083	1
43DAP/42DAP	0.90055	0.827
47DAP/43DAP	0.96279	0.799
52DAP/47DAP	1.56949	0.268
57DAP/52DAP	0.82382	0.772

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93967	0.167
17DAP/reference	0.99005	0.819
27DAP/reference	0.99121	0.779
39DAP/reference	1.00124	1
41DAP/reference	0.98846	0.814
42DAP/reference	0.9474	0.134
43DAP/reference	1.10797	0.175
47DAP/reference	0.91642	0.006
52DAP/reference	0.86466	0.147
57DAP/reference	0.8508	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96165	0.629
27DAP/17DAP	1.04004	0.924
39DAP/27DAP	1.06191	0.611
41DAP/39DAP	1.07904	0.896
42DAP/41DAP	1.03097	0.984
43DAP/42DAP	1.02593	0.83
47DAP/43DAP	1.00156	0.99
52DAP/47DAP	1.01003	0.982
57DAP/52DAP	0.92073	0.326
57DAP/7DAP	1.37016	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84576	0.066
17DAP/reference	0.87009	0.014
27DAP/reference	0.84868	0.01
39DAP/reference	0.86636	0.034
41DAP/reference	0.82809	0.02
42DAP/reference	0.79664	0.01
43DAP/reference	0.76779	0.015
47DAP/reference	0.8356	0.168
52DAP/reference	0.7337	0.012
57DAP/reference	0.74008	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99993	0.93
17DAP/reference	0.97751	0.536
27DAP/reference	0.90108	0.167
39DAP/reference	0.94756	0.306
41DAP/reference	0.86825	0.036
42DAP/reference	0.83795	0.032
43DAP/reference	1.00785	0.846
47DAP/reference	0.9503	0.27
52DAP/reference	1.0298	0.667
57DAP/reference	1.08856	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94272	0.169
17DAP/reference	1.00568	0.918
27DAP/reference	0.86653	0.056
39DAP/reference	0.82701	0.012
41DAP/reference	0.83947	0.018
42DAP/reference	0.78541	0.041
43DAP/reference	0.8547	0.076
47DAP/reference	1.03457	0.82
52DAP/reference	0.91313	0.368
57DAP/reference	0.6039	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99926	1
26DAP/20DAP	1.01598	1
34DAP/26DAP	1.08414	1
51DAP/34DAP	0.90302	0.351
52DAP/51DAP	1.01019	0.904
53DAP/52DAP	1.04251	0.712
55DAP/53DAP	1.04641	0.955
57DAP/55DAP	1.12991	0.543
62DAP/57DAP	1.29036	0.303
68DAP/62DAP	0.73877	0.166
68DAP/14DAP	0.98894	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91448	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21926	0.287
Mature Green Tomato/Ripe Tomato	1.36722	0.898
Immature Eggplant/Mature Eggplant	1.22377	0.528
Ripe Pepper/Ripe Tomato	1.94445	1
Mature Eggplant/Ripe Tomato	0.37866	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98721	0.961
1-1-2/M82	0.85909	1
12-2/M82	1.2677	1
12-4/M82	1.09339	1
1-3/M82	0.99099	1
2-1-1/M82	1.0226	1
2-1/M82	0.83895
2-6/M82	1.08418	1
3-2/M82	0.89489	0.752
4-1-1/M82	0.91246	1
4-1/M82	1.08416	1
4-3-2/M82	0.83009	1
4-3/M82	0.92367	1
5-3/M82	0.9438	1
6-2/M82	0.874	0.497
6-3/M82	1.04916	1
7-1/M82	0.88998	1
7-2/M82	0.91532	0.599
9-3-2/M82	0.82495	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94662	1
IL2-6/WTpooled	1.38705	0.584
IL7-5/WTpooled	1.11373
IL7-3/WTpooled	1.04954	1
IL12-4/WTpooled	0.91018	1
IL1-4/WTpooled	0.93319	0.834
WT/WTpooled	0.84006	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	0.70067	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9237
DC3000/delta hrp 6h	0.93664	0.95
DC3000/delta hrp 12h	1.21276	1
DC3000/delta hrp 24h	0.957	0.7

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75042	0.031
DC3000 delta B/DC3000 delta AB	0.91881	0.245

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98244	1
Exp 36h	0.77646	0.406
Exp 60h	0.86367	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98737	1
Var 0h	0.34795	1
Var 12h I row2-row1	0.99258	1
Var 12h NI row2-row1	1.08197	1
Var 36h I row2-row1	1.09134	1
Var 36h NI row2-row1	0.98946	0.852
Var 60h I row2-row1	1.5401	0.562
Var 60h NI row2-row1	1.21381	0.904
Time course 0hI-0hNI	1.00223	1
Time course 12hI-12hNI	0.96048	0.501
Time course 36hI-36hNI	0.90341	0.078
Time course 60hI-60hNI	0.66531	0.047

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)	0.91574	0.362
transgenic ySAMdc/azygous control (breaker)	1.06608	1
transgenic ySAMdc/azygous control (red)	0.98682	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02968	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26305	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.70564	0.087
Manapal/WT (break)	1.61683	0.13
Manapal/WT (red)	1.40761	0.126