Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.00171	0.545
27DAP/17DAP	0.92077	0.846
39DAP/27DAP	1.1423	0.575
41DAP/39DAP	0.80962	0.358
42DAP/41DAP	0.68862	0.397
43DAP/42DAP	1.07213	1
47DAP/43DAP	1.0719	0.873
52DAP/47DAP	0.58034	0.063
57DAP/52DAP	0.9303	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8417	0.087
17DAP/reference	1.04279	0.355
27DAP/reference	0.99805	0.904
39DAP/reference	0.93028	0.587
41DAP/reference	0.90282	0.114
42DAP/reference	0.86927	0.03
43DAP/reference	1.01471	0.866
47DAP/reference	0.91338	0.322
52DAP/reference	0.83488	0.038
57DAP/reference	0.77827	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62314	0.238
27DAP/17DAP	1.16247	0.9
39DAP/27DAP	1.25913	0.698
41DAP/39DAP	1.11848	1
42DAP/41DAP	2.221	0.003
43DAP/42DAP	1.21998	0.664
47DAP/43DAP	1.05551	0.99
52DAP/47DAP	1.42065	0.512
57DAP/52DAP	N/A	N/A
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84742	0.138
17DAP/reference	0.90238	0.192
27DAP/reference	0.86238	0.283
39DAP/reference	0.84822	0.056
41DAP/reference	0.72618	0.016
42DAP/reference	0.75888	0.012
43DAP/reference	0.82275	0.049
47DAP/reference	0.81852	0.128
52DAP/reference	0.92602	0.232
57DAP/reference	1.01823	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83114	0.119
17DAP/reference	0.71754	0.004
27DAP/reference	0.49343	0.007
39DAP/reference	0.87919	0.214
41DAP/reference	0.79448	0.098
42DAP/reference	2.1629	0.008
43DAP/reference	1.08232	0.986
47DAP/reference	N/A	N/A
52DAP/reference	0.86977	0.06
57DAP/reference	0.95156	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92935	0.127
17DAP/reference	1.39634	0.712
27DAP/reference	1.0229	0.934
39DAP/reference	0.94205	0.222
41DAP/reference	0.82722	0.096
42DAP/reference	1.0378	1
43DAP/reference	1.03394	0.7
47DAP/reference	0.91495	0.125
52DAP/reference	0.84962	0.172
57DAP/reference	0.99661	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97312	1
26DAP/20DAP	1.17024
34DAP/26DAP	0.86775	0.898
51DAP/34DAP	0.97467
52DAP/51DAP	0.51156	1
53DAP/52DAP	1.11129	1
55DAP/53DAP	0.4591
57DAP/55DAP	1.27641	0.745
62DAP/57DAP	1.27943	0.723
68DAP/62DAP	1.13483	1
68DAP/14DAP	1.71405	0.087

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66403	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.45985	0.083
Mature Green Tomato/Ripe Tomato	5.37985	0.015
Immature Eggplant/Mature Eggplant	0.95068	0.651
Ripe Pepper/Ripe Tomato	3.32664	1
Mature Eggplant/Ripe Tomato	1.42661	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.22948	0.551
1-1-2/M82	0.9632	1
12-2/M82	0.89699
12-4/M82	0.96339	1
1-3/M82	0.72761
2-1-1/M82	0.88756
2-1/M82	N/A	N/A
2-6/M82	0.8395	1
3-2/M82	0.69834	0.752
4-1-1/M82	N/A	N/A
4-1/M82	0.79875
4-3-2/M82	N/A	N/A
4-3/M82	0.96209	1
5-3/M82	0.76874	0.642
6-2/M82	0.97041
6-3/M82	N/A	N/A
7-1/M82	0.62602
7-2/M82	0.92738	0.57
9-3-2/M82	0.72694

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89408
IL2-6/WTpooled	1.19195	0.456
IL7-5/WTpooled	0.87064
IL7-3/WTpooled	1.05724	0.362
IL12-4/WTpooled	1.01922	1
IL1-4/WTpooled	1.34695
WT/WTpooled	1.19366	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	0.97732	1
DC3000/delta hrp 6h	1.04961	1
DC3000/delta hrp 12h	0.92433	1
DC3000/delta hrp 24h	0.84157	0.178

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	1.05967	1
Exp 36h	0.95443	0.879
Exp 60h	1.11885	1

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)	1.07712	0.36
transgenic ySAMdc/azygous control (breaker)	0.79392	0.142
transgenic ySAMdc/azygous control (red)	1.11686	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02604	0.204

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)	2.31289	0.083
Manapal/WT (break)	1.41038	0.126
Manapal/WT (red)	1.28394	0.164