Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03233	0.964
27DAP/17DAP	1.02709	0.963
39DAP/27DAP	0.90792	0.62
41DAP/39DAP	0.96694	0.772
42DAP/41DAP	1.04137	1
43DAP/42DAP	0.88892	0.806
47DAP/43DAP	0.96475	0.835
52DAP/47DAP	0.85344	0.639
57DAP/52DAP	1.00168	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96472	0.432
17DAP/reference	1.12206	0.02
27DAP/reference	1.04909	0.487
39DAP/reference	1.00459	0.857
41DAP/reference	1.13422	0.102
42DAP/reference	0.88754	0.023
43DAP/reference	1.00968	0.899
47DAP/reference	0.92055	0.003
52DAP/reference	0.92834	0.244
57DAP/reference	0.85106	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85758	0.428
27DAP/17DAP	0.79304	0.782
39DAP/27DAP	0.93825	0.754
41DAP/39DAP	1.06564	0.893
42DAP/41DAP	0.70027	0.143
43DAP/42DAP	1.20539	1
47DAP/43DAP	1.49727	0.5
52DAP/47DAP	2.69148	0.084
57DAP/52DAP	1.51739	0.471
57DAP/7DAP	1.60273

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74952	0.157
17DAP/reference	0.71378	0.024
27DAP/reference	0.85411	0.071
39DAP/reference	0.67461	0.011
41DAP/reference	0.72658	0.026
42DAP/reference	0.61982	0.011
43DAP/reference	0.87669	0.072
47DAP/reference	0.89077	0.101
52DAP/reference	0.79486	0.023
57DAP/reference	0.69377	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92989	0.362
17DAP/reference	0.85152	0.016
27DAP/reference	0.91242	0.317
39DAP/reference	0.85916	0.091
41DAP/reference	0.87954	0.076
42DAP/reference	0.84874	0.015
43DAP/reference	0.92479	0.394
47DAP/reference	0.90925	0.087
52DAP/reference	0.90701	0.101
57DAP/reference	0.94281	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90408	0.23
17DAP/reference	0.93534	0.508
27DAP/reference	0.82015	0.038
39DAP/reference	0.80621	0.015
41DAP/reference	0.9018	0.185
42DAP/reference	0.82439	0.036
43DAP/reference	0.80863	0.081
47DAP/reference	0.96486	0.421
52DAP/reference	0.71979	0.189
57DAP/reference	0.66041	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93843	1
26DAP/20DAP	1.61731	0.285
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.13636
52DAP/51DAP	0.64215	1
53DAP/52DAP	0.67752	0.15
55DAP/53DAP	0.63509	0.462
57DAP/55DAP	0.99595	0.927
62DAP/57DAP	0.83441	0.681
68DAP/62DAP	1.64034	0.657
68DAP/14DAP	0.77279	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65155	0.046

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.43516	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.52244	0.224
Mature Eggplant/Ripe Tomato	0.26161

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	0.86658	0.243
IL2-6/WTpooled	0.89931	1
IL7-5/WTpooled	1.69113	0.792
IL7-3/WTpooled	0.96842	0.418
IL12-4/WTpooled	1.05078	1
IL1-4/WTpooled	1.0668	1
WT/WTpooled	0.89326	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	1.34633
DC3000/delta hrp 6h	0.80536
DC3000/delta hrp 12h	1.16399	1
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	1.15773	1
Exp 36h	1.3667	1
Exp 60h	0.93815	0.994

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	0.68102
Var 36h NI row2-row1	2.35908
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	6.30605	1
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	1.25442	0.741
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	2.02602	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)	1.3046	0.289
transgenic ySAMdc/azygous control (breaker)	0.84927	0.251
transgenic ySAMdc/azygous control (red)	1.12076	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98424	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63838	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69662	1
Manapal/WT (break)	0.80855	1
Manapal/WT (red)	1.25785	0.142