Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02502	0.977
27DAP/17DAP	1.24305	0.804
39DAP/27DAP	1.01491	0.899
41DAP/39DAP	1.17301	0.676
42DAP/41DAP	0.94757	1
43DAP/42DAP	1.01455	1
47DAP/43DAP	1.23201	0.497
52DAP/47DAP	0.81744	0.53
57DAP/52DAP	0.96981	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92505	0.326
17DAP/reference	1.01667	0.508
27DAP/reference	1.01366	0.88
39DAP/reference	1.00499	0.889
41DAP/reference	0.99862	1
42DAP/reference	0.89392	0.012
43DAP/reference	1.01031	1
47DAP/reference	0.9816	0.418
52DAP/reference	0.97026	0.461
57DAP/reference	1.02564	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99171	0.801
27DAP/17DAP	1.04254	0.836
39DAP/27DAP	0.96271	0.456
41DAP/39DAP	1.03194	0.853
42DAP/41DAP	0.96099	0.61
43DAP/42DAP	0.99985	1
47DAP/43DAP	0.98074	0.919
52DAP/47DAP	0.99281	0.951
57DAP/52DAP	0.94485	0.267
57DAP/7DAP	0.9095	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10549	0.268
17DAP/reference	0.92672	0.192
27DAP/reference	1.01561	1
39DAP/reference	1.05768	0.779
41DAP/reference	1.01203	1
42DAP/reference	0.96748	0.415
43DAP/reference	0.94018	0.292
47DAP/reference	0.97575	0.671
52DAP/reference	1.07163	0.832
57DAP/reference	0.95467	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96024	0.548
17DAP/reference	0.88318	0.028
27DAP/reference	0.81472	0.119
39DAP/reference	0.82216	0.095
41DAP/reference	0.88106	0.137
42DAP/reference	0.98113	0.534
43DAP/reference	0.99537	0.646
47DAP/reference	1.02212	0.916
52DAP/reference	0.79169	0.01
57DAP/reference	0.94399	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93587	0.335
17DAP/reference	1.05618	0.482
27DAP/reference	0.98816	0.691
39DAP/reference	1.05491	0.528
41DAP/reference	1.10511	0.554
42DAP/reference	1.11186	0.658
43DAP/reference	0.90741	0.246
47DAP/reference	0.97355	0.494
52DAP/reference	1.07287	0.801
57DAP/reference	0.92067	0.31

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99444	1
26DAP/20DAP	0.84837
34DAP/26DAP	0.94915	0.666
51DAP/34DAP	1.13169	0.271
52DAP/51DAP	1.01108	0.965
53DAP/52DAP	1.0289	0.921
55DAP/53DAP	0.92433	0.376
57DAP/55DAP	1.07255	0.975
62DAP/57DAP	1.0901	0.8
68DAP/62DAP	0.96144	0.81
68DAP/14DAP	1.53114	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85837	0.129

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01171	0.826
Mature Green Tomato/Ripe Tomato	1.03067	1
Immature Eggplant/Mature Eggplant	1.17273	0.23
Ripe Pepper/Ripe Tomato	1.22225	1
Mature Eggplant/Ripe Tomato	1.07149	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98015	0.944
1-1-2/M82	0.97649	1
12-2/M82	0.95446	0.692
12-4/M82	0.92652	1
1-3/M82	0.89227	0.501
2-1-1/M82	0.80947	0.465
2-1/M82	0.97317	1
2-6/M82	0.95518	1
3-2/M82	1.04564	0.84
4-1-1/M82	1.01127	1
4-1/M82	1.26476	0.853
4-3-2/M82	0.80301	0.698
4-3/M82	0.90612	0.72
5-3/M82	0.96334	0.49
6-2/M82	0.96043	1
6-3/M82	1.00101	1
7-1/M82	0.96889	1
7-2/M82	0.99237	1
9-3-2/M82	0.95444	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83291	0.243
IL2-6/WTpooled	1.25789
IL7-5/WTpooled	0.88865	1
IL7-3/WTpooled	0.86143	1
IL12-4/WTpooled	1.03294	1
IL1-4/WTpooled	1.04815	1
WT/WTpooled	0.90941	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	0.99773	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99275	1
DC3000/delta hrp 6h	1.48167	1
DC3000/delta hrp 12h	1.05948	1
DC3000/delta hrp 24h	0.98908	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3064	0.042
DC3000 delta B/DC3000 delta AB	1.17482	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87815	1
Exp 36h	1.44271	0.693
Exp 60h	1.22093	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00311	1
Var 0h	0.51217	1
Var 12h I row2-row1	1.22504	0.348
Var 12h NI row2-row1	1.05709	1
Var 36h I row2-row1	0.85266	0.374
Var 36h NI row2-row1	0.99074	0.852
Var 60h I row2-row1	1.06355	1
Var 60h NI row2-row1	1.09027	0.904
Time course 0hI-0hNI	0.98781	0.988
Time course 12hI-12hNI	1.05995	0.587
Time course 36hI-36hNI	1.09244	0.166
Time course 60hI-60hNI	1.33008	0.022

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)	1.0396	0.863
transgenic ySAMdc/azygous control (breaker)	1.4243	0.248
transgenic ySAMdc/azygous control (red)	1.18315	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96704	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.24305	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.143	0.14
Manapal/WT (break)	0.78807	0.333
Manapal/WT (red)	0.93587	0.503