Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.13.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10709	0.904
27DAP/17DAP	1.25831	0.881
39DAP/27DAP	0.81189	0.378
41DAP/39DAP	1.46518	0.102
42DAP/41DAP	1.22354	0.863
43DAP/42DAP	1.04782	0.945
47DAP/43DAP	0.94763	0.744
52DAP/47DAP	1.31064	0.502
57DAP/52DAP	1.03681	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98185	0.578
17DAP/reference	1.02947	0.476
27DAP/reference	1.01388	0.806
39DAP/reference	1.02085	0.734
41DAP/reference	1.03735	0.312
42DAP/reference	0.94272	0.056
43DAP/reference	1.00609	0.982
47DAP/reference	0.90659	0.005
52DAP/reference	0.96012	0.449
57DAP/reference	0.87327	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9184	0.376
27DAP/17DAP	0.9932	0.887
39DAP/27DAP	1.06907	0.514
41DAP/39DAP	0.95183	0.875
42DAP/41DAP	1.02447	0.947
43DAP/42DAP	0.96662	0.558
47DAP/43DAP	0.98134	0.886
52DAP/47DAP	1.00073	1
57DAP/52DAP	1.03262	0.8
57DAP/7DAP	1.06729	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91487	0.168
17DAP/reference	1.02448	0.574
27DAP/reference	0.95245	0.094
39DAP/reference	1.06686	0.086
41DAP/reference	0.96946	0.341
42DAP/reference	0.9814	0.338
43DAP/reference	1.00193	1
47DAP/reference	0.91719	0.168
52DAP/reference	0.9039	0.053
57DAP/reference	0.94925	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98708	0.786
17DAP/reference	0.95989	0.317
27DAP/reference	0.82432	0.054
39DAP/reference	0.91855	0.202
41DAP/reference	0.88291	0.127
42DAP/reference	0.90941	0.15
43DAP/reference	0.926	0.224
47DAP/reference	0.97996	0.473
52DAP/reference	0.97381	0.351
57DAP/reference	1.03123	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97533	0.566
17DAP/reference	0.99257	0.778
27DAP/reference	0.93474	0.133
39DAP/reference	0.90883	0.04
41DAP/reference	1.06526	0.796
42DAP/reference	0.90297	0.22
43DAP/reference	0.82118	0.137
47DAP/reference	0.95388	0.409
52DAP/reference	0.79297	0.268
57DAP/reference	0.68493	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92761	0.479
26DAP/20DAP	1.07532	0.663
34DAP/26DAP	0.96723	0.98
51DAP/34DAP	0.84283	0.201
52DAP/51DAP	1.00865	0.925
53DAP/52DAP	1.01705	0.944
55DAP/53DAP	1.06563	0.576
57DAP/55DAP	0.97125	0.831
62DAP/57DAP	1.06831	0.569
68DAP/62DAP	0.89429	0.668
68DAP/14DAP	1.00113	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82839	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.10327
Mature Green Tomato/Ripe Tomato	1.04899	0.898
Immature Eggplant/Mature Eggplant	1.06233	0.507
Ripe Pepper/Ripe Tomato	0.79618	1
Mature Eggplant/Ripe Tomato	3.04071	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9202	0.907
1-1-2/M82	0.97687	1
12-2/M82	1.13463	1
12-4/M82	0.88099	1
1-3/M82	0.82256	0.378
2-1-1/M82	1.2726	0.764
2-1/M82	1.25043
2-6/M82	1.03915	0.329
3-2/M82	0.86334	1
4-1-1/M82	0.92504	1
4-1/M82	1.03522	1
4-3-2/M82	0.86862	0.698
4-3/M82	0.98902	1
5-3/M82	1.03288	1
6-2/M82	0.98872	1
6-3/M82	1.05603	1
7-1/M82	1.05865	1
7-2/M82	1.0361	0.318
9-3-2/M82	0.81022	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08825	0.277
IL2-6/WTpooled	1.15877	0.531
IL7-5/WTpooled	1.08486	1
IL7-3/WTpooled	1.06373	1
IL12-4/WTpooled	0.99655	1
IL1-4/WTpooled	1.26035	1
WT/WTpooled	0.95481	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	0.99797	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9862	1
DC3000/delta hrp 6h	1.41012	1
DC3000/delta hrp 12h	1.30872	1
DC3000/delta hrp 24h	1.11514	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95006	0.724
DC3000 delta B/DC3000 delta AB	1.08564	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16045	1
Exp 36h	0.78558	0.539
Exp 60h	0.62156	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9698	1
Var 0h	0.95002	1
Var 12h I row2-row1	1.14542	0.222
Var 12h NI row2-row1	1.01644	1
Var 36h I row2-row1	1.18383	1
Var 36h NI row2-row1	0.83876	0.61
Var 60h I row2-row1	1.31714	0.562
Var 60h NI row2-row1	1.19112	0.904
Time course 0hI-0hNI	1.0643	0.764
Time course 12hI-12hNI	0.99449	1
Time course 36hI-36hNI	0.94317	0.22
Time course 60hI-60hNI	1.21442	0.06

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)	0.78451	0.286
transgenic ySAMdc/azygous control (breaker)	0.73548	0.139
transgenic ySAMdc/azygous control (red)	1.14181	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.014	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87228	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.68249	1
Manapal/WT (break)	0.5173	0.333
Manapal/WT (red)	0.84322	0.503