Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.10.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20016	0.656
27DAP/17DAP	0.50005	0.035
39DAP/27DAP	0.62432	0.338
41DAP/39DAP	0.50582	0.041
42DAP/41DAP	0.5354	0.262
43DAP/42DAP	1.4431	0.249
47DAP/43DAP	0.26072	0.04
52DAP/47DAP	0.77639	0.515
57DAP/52DAP	0.83639	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30866	0.033
17DAP/reference	0.91601	0.393
27DAP/reference	0.89949	0.471
39DAP/reference	0.72751	0.114
41DAP/reference	0.4218	0.01
42DAP/reference	0.67195	0.003
43DAP/reference	0.45949	0.021
47DAP/reference	0.34446	0.001
52DAP/reference	0.3834	0.022
57DAP/reference	0.56691	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.86942	0.036
27DAP/17DAP	0.81557	0.39
39DAP/27DAP	0.29945	0.028
41DAP/39DAP	1.36005	0.641
42DAP/41DAP	1.01963	0.819
43DAP/42DAP	0.36611	0.02
47DAP/43DAP	0.65041	0.009
52DAP/47DAP	0.73558	0.103
57DAP/52DAP	0.84684	0.342
57DAP/7DAP	0.07949	0.159

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.02362	0.024
17DAP/reference	1.31342	0.011
27DAP/reference	0.80963	0.051
39DAP/reference	0.86032	0.23
41DAP/reference	0.47292	0.01
42DAP/reference	0.39134	0.01
43DAP/reference	0.41566	0.011
47DAP/reference	0.30438	0.027
52DAP/reference	0.55839	0.013
57DAP/reference	0.71132	0.028

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97243	0.623
17DAP/reference	0.97601	0.499
27DAP/reference	1.05553	1
39DAP/reference	0.66734	0.02
41DAP/reference	0.73069	0.042
42DAP/reference	0.55254	0.011
43DAP/reference	0.23637	0.002
47DAP/reference	0.28965	0.01
52DAP/reference	0.40238	0.003
57DAP/reference	0.18317	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.21342	0.015
17DAP/reference	3.15838	0.11
27DAP/reference	2.79049	0.014
39DAP/reference	2.24809	0.007
41DAP/reference	1.4854	0.014
42DAP/reference	1.07627	1
43DAP/reference	1.13281	0.362
47DAP/reference	0.53922	0.008
52DAP/reference	0.5434	0.101
57DAP/reference	2.37851	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94559	1
26DAP/20DAP	0.84573	0.512
34DAP/26DAP	0.89588	0.682
51DAP/34DAP	0.65794
52DAP/51DAP	0.87593	1
53DAP/52DAP	0.74894	0.159
55DAP/53DAP	0.94841	0.876
57DAP/55DAP	0.93566	0.677
62DAP/57DAP	1.14569	0.935
68DAP/62DAP	1.53731	0.557
68DAP/14DAP	0.77915	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.14323	0.099

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.50659	0.058
Mature Green Tomato/Ripe Tomato	30.5758	0.015
Immature Eggplant/Mature Eggplant	0.59425	0.063
Ripe Pepper/Ripe Tomato	34.741	1
Mature Eggplant/Ripe Tomato	21.3454	0.26

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	2.54187	0.572
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87471	1
IL12-4/WTpooled	0.84115	0.566
IL1-4/WTpooled	1.04319	1
WT/WTpooled	1.03687	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	1.01891	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91705	1
DC3000/delta hrp 6h	1.12069	1
DC3000/delta hrp 12h	1.20147	1
DC3000/delta hrp 24h	0.97711	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96903	0.597
DC3000 delta B/DC3000 delta AB	0.77483	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00799	1
Exp 36h	0.93231	0.82
Exp 60h	0.98795	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00585	1
Var 0h	1.17704	0.98
Var 12h I row2-row1	1.0562	0.654
Var 12h NI row2-row1	1.00115	1
Var 36h I row2-row1	0.82984	1
Var 36h NI row2-row1	0.95527	0.743
Var 60h I row2-row1	1.26251	0.562
Var 60h NI row2-row1	0.985	1
Time course 0hI-0hNI	1.02337	0.867
Time course 12hI-12hNI	1.00621	0.854
Time course 36hI-36hNI	1.04762	0.28
Time course 60hI-60hNI	0.6548	0.047

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)	1.27724	0.541
transgenic ySAMdc/azygous control (breaker)	4.28622	0.162
transgenic ySAMdc/azygous control (red)	1.29025	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.59264	0.107

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03036	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.77271	0.083
Manapal/WT (break)	10.3605	0.14
Manapal/WT (red)	10.2573	0.133