Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.1.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13046	0.534
27DAP/17DAP	0.97634	0.945
39DAP/27DAP	1.33311	0.433
41DAP/39DAP	1.04769	0.904
42DAP/41DAP	0.95449	1
43DAP/42DAP	0.92522	0.801
47DAP/43DAP	1.0876	0.481
52DAP/47DAP	1.29134	0.676
57DAP/52DAP	0.92562	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22611	0.089
17DAP/reference	1.0871	0.476
27DAP/reference	0.91235	0.152
39DAP/reference	1.05174	0.514
41DAP/reference	1.06025	0.48
42DAP/reference	1.15229	0.019
43DAP/reference	1.14811	0.047
47DAP/reference	1.04303	0.885
52DAP/reference	0.92683	0.128
57DAP/reference	0.92505	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91891	0.542
27DAP/17DAP	0.86581	0.614
39DAP/27DAP	1.06418	0.742
41DAP/39DAP	1.08518	0.837
42DAP/41DAP	1.48969	0.017
43DAP/42DAP	1.05771	0.664
47DAP/43DAP	0.82947	0.188
52DAP/47DAP	1.31616	0.367
57DAP/52DAP	1.99798	0.069
57DAP/7DAP	1.19406	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83788	0.077
17DAP/reference	0.77138	0.014
27DAP/reference	0.87256	0.037
39DAP/reference	0.73627	0.011
41DAP/reference	0.78218	0.086
42DAP/reference	0.56912	0.01
43DAP/reference	0.75469	0.033
47DAP/reference	1.04773	0.948
52DAP/reference	0.74922	0.035
57DAP/reference	0.67681	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3413	0.069
17DAP/reference	1.26747	0.024
27DAP/reference	1.48648	0.017
39DAP/reference	1.18166	0.2
41DAP/reference	1.24939	0.183
42DAP/reference	1.12742	0.274
43DAP/reference	1.37609	0.121
47DAP/reference	1.14553	0.212
52DAP/reference	1.09994	0.24
57DAP/reference	1.48516	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86593	0.033
17DAP/reference	1.00142	0.739
27DAP/reference	0.68427	0.023
39DAP/reference	0.7099	0.01
41DAP/reference	0.79372	0.022
42DAP/reference	0.9604	0.552
43DAP/reference	0.96085	0.503
47DAP/reference	0.90211	0.132
52DAP/reference	1.13235	0.928
57DAP/reference	1.04292	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02692	0.966
26DAP/20DAP	0.96197	1
34DAP/26DAP	1.44217	1
51DAP/34DAP	1.45464	0.84
52DAP/51DAP	2.07182	0.05
53DAP/52DAP	0.85761	0.475
55DAP/53DAP	1.55771	0.049
57DAP/55DAP	0.84904	0.464
62DAP/57DAP	1.01913	1
68DAP/62DAP	1.15947	0.754
68DAP/14DAP	1.04646	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.34798	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97405	0.745
Mature Green Tomato/Ripe Tomato	0.42745	0.02
Immature Eggplant/Mature Eggplant	1.06057	0.554
Ripe Pepper/Ripe Tomato	0.91496	1
Mature Eggplant/Ripe Tomato	0.64627	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2553	0.551
1-1-2/M82	0.92286	1
12-2/M82	0.94742	0.955
12-4/M82	0.89577	0.619
1-3/M82	1.50309
2-1-1/M82	0.39726
2-1/M82	N/A	N/A
2-6/M82	1.12148
3-2/M82	1.02207	0.84
4-1-1/M82	N/A	N/A
4-1/M82	1.50061
4-3-2/M82	1.20799
4-3/M82	1.61897	0.268
5-3/M82	0.907	0.642
6-2/M82	1.54242	1
6-3/M82	0.52463
7-1/M82	0.926	0.803
7-2/M82	1.24064	1
9-3-2/M82	1.11812	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16368	0.493
IL2-6/WTpooled	1.0007	1
IL7-5/WTpooled	1.21451	1
IL7-3/WTpooled	0.99428	1
IL12-4/WTpooled	1.04907	1
IL1-4/WTpooled	1.05182	1
WT/WTpooled	0.97161	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	1.04662	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0485	0.921
DC3000/delta hrp 6h	0.95496	0.95
DC3000/delta hrp 12h	1.06057	1
DC3000/delta hrp 24h	1.25479	0.041

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19308	0.384
DC3000 delta B/DC3000 delta AB	1.26343	0.327

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96774	1
Exp 36h	1.1558	0.489
Exp 60h	1.0924	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04767	1
Var 0h	0.90104	1
Var 12h I row2-row1	0.76804	0.353
Var 12h NI row2-row1	1.02659	1
Var 36h I row2-row1	1.12031	1
Var 36h NI row2-row1	1.838	0.482
Var 60h I row2-row1	0.9166	0.374
Var 60h NI row2-row1	0.9436	1
Time course 0hI-0hNI	0.96717	0.849
Time course 12hI-12hNI	0.93727	0.675
Time course 36hI-36hNI	0.89662	0.136
Time course 60hI-60hNI	0.55907	0.006

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)	1.00559	1
transgenic ySAMdc/azygous control (breaker)	0.98608	1
transgenic ySAMdc/azygous control (red)	1.11564	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96275	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2478	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91938	1
Manapal/WT (break)	1.09788	1
Manapal/WT (red)	1.29443	0.126