Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.1.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32825	0.798
27DAP/17DAP	0.94293	0.939
39DAP/27DAP	0.72936	0.529
41DAP/39DAP	0.88778	0.701
42DAP/41DAP	1.18419	1
43DAP/42DAP	1.06562	1
47DAP/43DAP	0.97682	0.926
52DAP/47DAP	1.66748	0.401
57DAP/52DAP	1.61353	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89165	0.284
17DAP/reference	0.77249	0.009
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	0.86213	0.267
42DAP/reference	1.11443	0.585
43DAP/reference	0.69432	0.015
47DAP/reference	1.16915	0.524
52DAP/reference	1.17174	0.045
57DAP/reference	1.40142	0.066

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.00041	0.464
27DAP/17DAP	1.21233	0.751
39DAP/27DAP	1.01126	0.925
41DAP/39DAP	0.95126
42DAP/41DAP	0.71413	0.358
43DAP/42DAP	0.71069
47DAP/43DAP	0.67686	0.04
52DAP/47DAP	0.79131	0.778
57DAP/52DAP	0.74297
57DAP/7DAP	0.99782

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02249	1
17DAP/reference	0.98133	0.518
27DAP/reference	1.0286	0.974
39DAP/reference	1.3933	0.04
41DAP/reference	0.90135	0.284
42DAP/reference	0.81195	0.063
43DAP/reference	0.87509	0.11
47DAP/reference	1.12673	0.854
52DAP/reference	0.79513	0.012
57DAP/reference	0.83126	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99501	0.831
17DAP/reference	1.08345	0.851
27DAP/reference	0.99095
39DAP/reference	1.06674	0.935
41DAP/reference	0.83882	0.007
42DAP/reference	1.82307	0.108
43DAP/reference	1.02375	0.846
47DAP/reference	0.86989	0.05
52DAP/reference	1.16303	0.011
57DAP/reference	1.01499	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93781	0.087
17DAP/reference	0.95495	0.519
27DAP/reference	1.30323	0.037
39DAP/reference	1.46975	0.01
41DAP/reference	1.47691	0.007
42DAP/reference	1.24402	0.042
43DAP/reference	1.19148	0.381
47DAP/reference	0.572
52DAP/reference	1.05857	0.779
57DAP/reference	2.28961	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.36306
26DAP/20DAP	0.75987	0.512
34DAP/26DAP	1.58115
51DAP/34DAP	1.19529	0.901
52DAP/51DAP	2.14563	0.246
53DAP/52DAP	1.45261	0.819
55DAP/53DAP	1.83462	0.813
57DAP/55DAP	0.97411
62DAP/57DAP	1.61341	0.35
68DAP/62DAP	N/A	N/A
68DAP/14DAP	0.96971

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15194	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.49608
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	N/A	N/A
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	N/A	N/A
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	0.84691	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.81828	1
IL12-4/WTpooled	0.337	0.71
IL1-4/WTpooled	1.29691	1
WT/WTpooled	1.04494	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	N/A	N/A

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

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

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	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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