Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.11.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00865	0.919
27DAP/17DAP	1.05469	1
39DAP/27DAP	0.83119	0.529
41DAP/39DAP	1.25051	0.3
42DAP/41DAP	1.00901	1
43DAP/42DAP	0.94337	0.895
47DAP/43DAP	1.22287	0.555
52DAP/47DAP	1.09611	0.96
57DAP/52DAP	1.02134	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95938	0.432
17DAP/reference	1.00735	0.787
27DAP/reference	1.02074	0.684
39DAP/reference	1.06834	0.434
41DAP/reference	1.05655	0.667
42DAP/reference	0.88907	0.019
43DAP/reference	0.95117	0.346
47DAP/reference	0.94518	0.083
52DAP/reference	0.88301	0.135
57DAP/reference	0.96177	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96167	0.595
27DAP/17DAP	0.89014
39DAP/27DAP	1.0764	0.56
41DAP/39DAP	1.05684	0.807
42DAP/41DAP	0.98624	0.85
43DAP/42DAP	1.13379	0.017
47DAP/43DAP	1.02711	0.88
52DAP/47DAP	1.03967	0.835
57DAP/52DAP	0.98658	0.763
57DAP/7DAP	1.00413	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90512	0.168
17DAP/reference	0.93805	0.035
27DAP/reference	0.8055	0.013
39DAP/reference	0.95019	0.17
41DAP/reference	0.87198	0.044
42DAP/reference	0.87059	0.014
43DAP/reference	0.95748	0.292
47DAP/reference	0.7988	0.079
52DAP/reference	0.82614	0.04
57DAP/reference	0.88661	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97551	0.688
17DAP/reference	0.92957	0.143
27DAP/reference	0.82221	0.111
39DAP/reference	0.82673	0.113
41DAP/reference	0.78462	0.046
42DAP/reference	0.92025	0.289
43DAP/reference	0.87778	0.144
47DAP/reference	0.99203	0.625
52DAP/reference	0.96195	0.22
57DAP/reference	1.04223	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95789	0.422
17DAP/reference	0.95736	0.444
27DAP/reference	0.9796	0.442
39DAP/reference	0.92605	0.063
41DAP/reference	0.92207	0.237
42DAP/reference	0.80555	0.023
43DAP/reference	0.83252	0.061
47DAP/reference	0.90111	0.168
52DAP/reference	0.9053	0.368
57DAP/reference	0.59547	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00578	1
26DAP/20DAP	0.92902	0.317
34DAP/26DAP	1.033	0.542
51DAP/34DAP	1.06182	0.666
52DAP/51DAP	1.01642	0.86
53DAP/52DAP	0.95904	0.817
55DAP/53DAP	0.9548	0.746
57DAP/55DAP	1.05057	1
62DAP/57DAP	1.00645	1
68DAP/62DAP	1.12624	0.813
68DAP/14DAP	0.94815	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01549	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.00197	0.774
Immature Eggplant/Mature Eggplant	8.8579	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	14.9672

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99268	1
1-1-2/M82	0.85379
12-2/M82	1.29723
12-4/M82	1.07355	1
1-3/M82	0.85354	0.33
2-1-1/M82	1.29807
2-1/M82	N/A	N/A
2-6/M82	0.9922	1
3-2/M82	0.90552	0.455
4-1-1/M82	0.87711	1
4-1/M82	1.03795	1
4-3-2/M82	0.79883	1
4-3/M82	0.82572	0.72
5-3/M82	0.94903	1
6-2/M82	N/A	N/A
6-3/M82	0.95602
7-1/M82	0.98053
7-2/M82	N/A	N/A
9-3-2/M82	0.84587	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.89877	1
IL1-4/WTpooled	0.9975	1
WT/WTpooled	0.9414	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	0.93742	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00604	1
DC3000/delta hrp 6h	0.52091
DC3000/delta hrp 12h	1.0782	1
DC3000/delta hrp 24h	1.05075	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00872	1
DC3000 delta B/DC3000 delta AB	1.05079	0.524

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.61195	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0048	1
Var 0h	1.51965	0.782
Var 12h I row2-row1	1.12177	0.211
Var 12h NI row2-row1	1.07235	1
Var 36h I row2-row1	0.86941	0.805
Var 36h NI row2-row1	0.92427	0.549
Var 60h I row2-row1	1.13781	1
Var 60h NI row2-row1	1.05015	0.904
Time course 0hI-0hNI	1.04879	1
Time course 12hI-12hNI	1.03262	0.747
Time course 36hI-36hNI	0.92545	0.134
Time course 60hI-60hNI	1.035	0.575

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	2.75786	1
transgenic ySAMdc/azygous control (red)	2.95894	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95792	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07269	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A