Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.11.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07766	0.863
27DAP/17DAP	1.02917	0.952
39DAP/27DAP	1.12022	1
41DAP/39DAP	0.95707	0.795
42DAP/41DAP	1.21469	0.507
43DAP/42DAP	1.26787	0.661
47DAP/43DAP	1.07833	0.746
52DAP/47DAP	0.93432	0.793
57DAP/52DAP	0.97084	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99197	0.679
17DAP/reference	0.94858	0.419
27DAP/reference	1.05768	0.672
39DAP/reference	0.95216	0.475
41DAP/reference	0.90285	0.049
42DAP/reference	0.96877	0.287
43DAP/reference	1.07602	0.34
47DAP/reference	0.95499	0.279
52DAP/reference	0.79391	0.022
57DAP/reference	0.95985	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9706	0.732
27DAP/17DAP	0.95077
39DAP/27DAP	1.04791	0.587
41DAP/39DAP	0.97125	0.98
42DAP/41DAP	1.01371	1
43DAP/42DAP	1.02042	0.585
47DAP/43DAP	0.97337	0.823
52DAP/47DAP	0.97015	0.902
57DAP/52DAP	1.01507	0.941
57DAP/7DAP	0.91971	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98734
17DAP/reference	0.9423	0.056
27DAP/reference	0.95695	0.171
39DAP/reference	0.94433	0.126
41DAP/reference	1.0262	0.812
42DAP/reference	1.06938	0.405
43DAP/reference	1.02782	0.788
47DAP/reference	1.18451	0.149
52DAP/reference	0.96677	0.435
57DAP/reference	1.00508	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96211	0.607
17DAP/reference	0.9611	0.41
27DAP/reference	0.93598	0.327
39DAP/reference	0.86845	0.136
41DAP/reference	0.91699	0.121
42DAP/reference	0.93264	0.261
43DAP/reference	0.85178	0.186
47DAP/reference	0.94661	0.227
52DAP/reference	0.84939	0.01
57DAP/reference	0.77742	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89411	0.169
17DAP/reference	0.93153	0.286
27DAP/reference	0.90951	0.089
39DAP/reference	0.88031	0.019
41DAP/reference	0.92476	0.331
42DAP/reference	1.1633	0.199
43DAP/reference	0.96587	0.568
47DAP/reference	1.01529	1
52DAP/reference	0.77362	0.111
57DAP/reference	0.96046	0.461

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17053	0.966
26DAP/20DAP	0.94468	0.512
34DAP/26DAP	0.98579	0.998
51DAP/34DAP	0.97869	0.77
52DAP/51DAP	0.98668	1
53DAP/52DAP	1.11251	0.783
55DAP/53DAP	1.0751	0.755
57DAP/55DAP	0.96356	0.823
62DAP/57DAP	1.0894	0.8
68DAP/62DAP	1.37245	0.707
68DAP/14DAP	0.82817	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98432	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.67158	0.089
Mature Green Tomato/Ripe Tomato	1.23629	0.478
Immature Eggplant/Mature Eggplant	0.67993	0.089
Ripe Pepper/Ripe Tomato	1.68855	1
Mature Eggplant/Ripe Tomato	1.69659	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2116
1-1-2/M82	1.27142	1
12-2/M82	N/A	N/A
12-4/M82	0.85681	0.257
1-3/M82	1.41916	0.248
2-1-1/M82	0.68262	0.465
2-1/M82	0.73994	0.519
2-6/M82	N/A	N/A
3-2/M82	1.55983
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.80695	0.487
4-3/M82	1.30311	0.268
5-3/M82	0.87355	0.49
6-2/M82	1.64914	1
6-3/M82	0.92673	1
7-1/M82	0.77512
7-2/M82	0.98993
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.43916	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.70307	0.31
IL12-4/WTpooled	1.00332	1
IL1-4/WTpooled	0.85177	0.834
WT/WTpooled	1.07062	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	1.40911	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13941	0.671
DC3000/delta hrp 6h	0.85931	0.95
DC3000/delta hrp 12h	0.96624	1
DC3000/delta hrp 24h	0.63394	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06637	0.16
DC3000 delta B/DC3000 delta AB	1.10809	0.349

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07764	1
Exp 36h	1.33291	1
Exp 60h	1.22217	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9842	1
Var 0h	1.32197	0.936
Var 12h I row2-row1	1.02614	0.795
Var 12h NI row2-row1	1.0786	1
Var 36h I row2-row1	1.04341	1
Var 36h NI row2-row1	0.95872	0.743
Var 60h I row2-row1	0.86527	0.439
Var 60h NI row2-row1	0.91546	0.818
Time course 0hI-0hNI	1.07706	0.833
Time course 12hI-12hNI	1.06491	0.392
Time course 36hI-36hNI	1.31861	0.006
Time course 60hI-60hNI	2.36463	0.008

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)	1.05759	0.482
transgenic ySAMdc/azygous control (breaker)	0.69959	0.142
transgenic ySAMdc/azygous control (red)	0.87548	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05264	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14602	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96145	1
Manapal/WT (break)	1.16856	0.381
Manapal/WT (red)	1.05192	1