Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.15.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98925	0.876
27DAP/17DAP	1.00964	1
39DAP/27DAP	1.06826	0.899
41DAP/39DAP	1.13253	0.871
42DAP/41DAP	1.08674	0.978
43DAP/42DAP	1.21305	0.933
47DAP/43DAP	0.97875	0.895
52DAP/47DAP	1.1631	0.989
57DAP/52DAP	0.97726	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87323	0.07
17DAP/reference	1.11397	0.031
27DAP/reference	0.99732	0.847
39DAP/reference	0.96602	0.651
41DAP/reference	1.13818	0.158
42DAP/reference	0.93342	0.107
43DAP/reference	0.95625	0.576
47DAP/reference	0.87297	0.038
52DAP/reference	0.80417	0.089
57DAP/reference	0.82045	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98408	0.75
27DAP/17DAP	1.09209	0.942
39DAP/27DAP	1.19579	0.394
41DAP/39DAP	0.95604	0.875
42DAP/41DAP	1.09698	0.727
43DAP/42DAP	1.32398	0.015
47DAP/43DAP	0.97079	0.886
52DAP/47DAP	1.14189	0.635
57DAP/52DAP	1.00592	0.902
57DAP/7DAP	1.39146	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93983	0.296
17DAP/reference	0.92504	0.22
27DAP/reference	1.00419	0.748
39DAP/reference	1.02958	0.601
41DAP/reference	1.09955	0.153
42DAP/reference	0.9457	0.211
43DAP/reference	0.99128	0.608
47DAP/reference	0.81085	0.066
52DAP/reference	0.91148	0.072
57DAP/reference	0.89071	0.048

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95987	0.607
17DAP/reference	0.85778	0.106
27DAP/reference	0.82023	0.097
39DAP/reference	0.74581	0.016
41DAP/reference	0.83504	0.083
42DAP/reference	0.93705	0.355
43DAP/reference	0.97955	0.569
47DAP/reference	1.01095	0.77
52DAP/reference	0.94036	0.302
57DAP/reference	1.06576	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00465	1
17DAP/reference	0.97908	0.668
27DAP/reference	1.07293	0.467
39DAP/reference	0.93975	0.271
41DAP/reference	0.94118	0.237
42DAP/reference	0.81101	0.108
43DAP/reference	0.87409	0.294
47DAP/reference	0.98887	0.593
52DAP/reference	0.96954	0.675
57DAP/reference	0.7238	0.065

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97346	1
26DAP/20DAP	0.97125	1
34DAP/26DAP	1.19428	1
51DAP/34DAP	1.19068	0.429
52DAP/51DAP	0.91634	1
53DAP/52DAP	1.32196	0.334
55DAP/53DAP	1.05195	0.842
57DAP/55DAP	0.99889	0.927
62DAP/57DAP	1.04732	0.994
68DAP/62DAP	1.01004	0.787
68DAP/14DAP	1.11257	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61759	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.29549	0.068
Mature Green Tomato/Ripe Tomato	1.09392
Immature Eggplant/Mature Eggplant	1.35355
Ripe Pepper/Ripe Tomato	36.0793	0.256
Mature Eggplant/Ripe Tomato	7.45438

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93279	0.944
1-1-2/M82	0.82528	0.958
12-2/M82	1.05214	1
12-4/M82	1.02099	1
1-3/M82	0.8018	0.286
2-1-1/M82	1.00504
2-1/M82	N/A	N/A
2-6/M82	0.91351	0.501
3-2/M82	0.82388
4-1-1/M82	1.02642	1
4-1/M82	N/A	N/A
4-3-2/M82	1.24018
4-3/M82	0.93413
5-3/M82	0.99042	1
6-2/M82	0.91358	1
6-3/M82	1.05317	1
7-1/M82	1.12688
7-2/M82	0.95161	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14271
IL2-6/WTpooled	0.94412	1
IL7-5/WTpooled	0.88021
IL7-3/WTpooled	0.92508	1
IL12-4/WTpooled	1.19154	0.891
IL1-4/WTpooled	0.95437	1
WT/WTpooled	1.05777	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	0.81953	0.163

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95511	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.00677	1
DC3000/delta hrp 24h	0.98928	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.85302	0.879
Exp 60h	1.28946	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.87843	1
Var 0h	0.96463	1
Var 12h I row2-row1	1.06917	0.443
Var 12h NI row2-row1	0.76069	0.427
Var 36h I row2-row1	0.79018	0.438
Var 36h NI row2-row1	1.01064	1
Var 60h I row2-row1	1.09955	0.543
Var 60h NI row2-row1	1.27744	0.904
Time course 0hI-0hNI	1.1734	0.603
Time course 12hI-12hNI	0.98622	0.935
Time course 36hI-36hNI	1.03061	0.881
Time course 60hI-60hNI	1.14527	0.426

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)	0.87742	0.391
transgenic ySAMdc/azygous control (breaker)	0.92972	0.49
transgenic ySAMdc/azygous control (red)	0.92374	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02343	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04269	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.82661	0.088
Manapal/WT (break)	1.16792	1
Manapal/WT (red)	1.78338	0.413