Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08148	0.827
27DAP/17DAP	1.16079	0.825
39DAP/27DAP	0.90002	0.62
41DAP/39DAP	0.98112	0.918
42DAP/41DAP	1.00081	1
43DAP/42DAP	1.04697	1
47DAP/43DAP	1.35111	0.569
52DAP/47DAP	0.84741	0.602
57DAP/52DAP	1.03598	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19339	0.46
17DAP/reference	0.95914	0.701
27DAP/reference	0.92262	0.581
39DAP/reference	1.09114	0.062
41DAP/reference	1.05942	0.667
42DAP/reference	1.10233	0.159
43DAP/reference	0.52781	0.017
47DAP/reference	0.99682	0.636
52DAP/reference	1.22496	0.007
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0269	1
27DAP/17DAP	0.99978	0.943
39DAP/27DAP	1.2374	0.296
41DAP/39DAP	0.9223	0.875
42DAP/41DAP	1.17173	0.935
43DAP/42DAP	1.40604	0.297
47DAP/43DAP	1.31131	0.957
52DAP/47DAP	0.9486	0.876
57DAP/52DAP	1.07679	0.911
57DAP/7DAP	1.4608

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03135	0.999
17DAP/reference	1.27623	0.02
27DAP/reference	1.16	0.023
39DAP/reference	1.45394	0.005
41DAP/reference	1.5056	0.013
42DAP/reference	1.59338	0.007
43DAP/reference	1.67096	0.008
47DAP/reference	0.93866	0.504
52DAP/reference	1.43857	0.008
57DAP/reference	1.50066	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88781	0.342
17DAP/reference	0.8727	0.116
27DAP/reference	1.12627	1
39DAP/reference	0.81096	0.081
41DAP/reference	0.93735	0.403
42DAP/reference	0.88	0.15
43DAP/reference	0.89336	0.285
47DAP/reference	1.04332	0.816
52DAP/reference	0.86405	0.131
57DAP/reference	0.93336	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94233	0.112
17DAP/reference	0.99063	0.763
27DAP/reference	1.2471	0.024
39DAP/reference	1.16212	0.008
41DAP/reference	1.08041	0.383
42DAP/reference	1.11271	0.459
43DAP/reference	1.12135	0.49
47DAP/reference	0.89434	0.249
52DAP/reference	1.15745	0.428
57DAP/reference	1.17298	0.592

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.4426	0.85
26DAP/20DAP	1.35524	0.562
34DAP/26DAP	0.97894	1
51DAP/34DAP	0.80527	0.703
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.22681	0.678
55DAP/53DAP	1.5146	0.348
57DAP/55DAP	1.112	0.969
62DAP/57DAP	1.00206	0.994
68DAP/62DAP	0.92554	0.769
68DAP/14DAP	0.91635	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41159	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.38822	0.437
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.99179	1
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.7255
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.84915
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38199	0.277
IL2-6/WTpooled	0.69931
IL7-5/WTpooled	0.68734	1
IL7-3/WTpooled	1.38838
IL12-4/WTpooled	1.17241	0.532
IL1-4/WTpooled	1.20788	0.426
WT/WTpooled	1.18904	0.785

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	0.99817

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98589
DC3000/delta hrp 6h	0.47043	0.95
DC3000/delta hrp 12h	1.0727	1
DC3000/delta hrp 24h	0.45679

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	1.04061	1
Exp 36h	1.0269	1
Exp 60h	0.86948	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00743	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.18102	0.613
Var 12h NI row2-row1	1.39692
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.81954	0.645
Var 60h I row2-row1	1.03122
Var 60h NI row2-row1	1.22055
Time course 0hI-0hNI	0.84588	0.165
Time course 12hI-12hNI	1.11011	0.754
Time course 36hI-36hNI	1.01763	0.975
Time course 60hI-60hNI	2.38211	0.216

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)	0.87545	0.246
transgenic ySAMdc/azygous control (breaker)	0.95878	1
transgenic ySAMdc/azygous control (red)	0.90147	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92476	0.136

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14003	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13927	0.307
Manapal/WT (break)	0.81567	0.333
Manapal/WT (red)	1.12146	1