Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.6.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.83506	0.443
27DAP/17DAP	1.16228	0.842
39DAP/27DAP	1.1014	0.876
41DAP/39DAP	0.55723	0.092
42DAP/41DAP	1.51996	0.481
43DAP/42DAP	1.1958	0.985
47DAP/43DAP	0.98171	0.913
52DAP/47DAP	1.23477	0.645
57DAP/52DAP	0.74518	0.74

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.57858	0.024
17DAP/reference	0.62662	0.008
27DAP/reference	0.70805	0.013
39DAP/reference	0.57788	0.01
41DAP/reference	0.53525	0.008
42DAP/reference	0.7635	0.003
43DAP/reference	0.67158	0.015
47DAP/reference	0.74161	0.002
52DAP/reference	0.93561	0.258
57DAP/reference	0.89366	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.55803	0.208
27DAP/17DAP	0.97123	0.919
39DAP/27DAP	1.34891	0.677
41DAP/39DAP	1.33223	0.799
42DAP/41DAP	0.98073	0.607
43DAP/42DAP	1.29031	0.585
47DAP/43DAP	1.31491	0.383
52DAP/47DAP	0.66115	0.112
57DAP/52DAP	0.84968	0.354
57DAP/7DAP	0.97016	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80559	0.095
17DAP/reference	0.88701	0.144
27DAP/reference	0.83266	0.058
39DAP/reference	1.36512	0.267
41DAP/reference	0.89487	0.247
42DAP/reference	0.90514	0.178
43DAP/reference	1.0094	0.727
47DAP/reference	0.70784	0.044
52DAP/reference	0.71267	0.012
57DAP/reference	0.65319	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62894	0.012
17DAP/reference	0.67548	0.007
27DAP/reference	0.85973	0.111
39DAP/reference	1.08283	0.272
41DAP/reference	1.00034	0.584
42DAP/reference	0.8588	0.039
43DAP/reference	0.58243	0.006
47DAP/reference	0.60668	0.008
52DAP/reference	0.87643	0.066
57DAP/reference	0.80969	0.073

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80934	0.082
17DAP/reference	0.81838	0.262
27DAP/reference	0.7457	0.073
39DAP/reference	0.7073	0.011
41DAP/reference	0.91103	0.417
42DAP/reference	0.96429	0.671
43DAP/reference	0.87999	0.256
47DAP/reference	0.8195	0.028
52DAP/reference	1.55094	1
57DAP/reference	1.2068	0.209

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40594	0.966
26DAP/20DAP	0.7205	0.317
34DAP/26DAP	1.64917	0.542
51DAP/34DAP	1.97029	0.103
52DAP/51DAP	0.81076	1
53DAP/52DAP	1.46083	0.204
55DAP/53DAP	0.65721	0.019
57DAP/55DAP	0.69725	0.081
62DAP/57DAP	1.62591	0.133
68DAP/62DAP	1.3788	0.481
68DAP/14DAP	2.15068	0.023

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.21801	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	1.10808	1
IL2-6/WTpooled	1.27022	0.409
IL7-5/WTpooled	0.75723	1
IL7-3/WTpooled	1.06138	1
IL12-4/WTpooled	0.8772	0.71
IL1-4/WTpooled	1.0567	1
WT/WTpooled	0.93985	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	1.15114	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05053	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.04092	1

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	0.99862	1
Var 0h	3.35525	0.216
Var 12h I row2-row1	1.53234	0.506
Var 12h NI row2-row1	1.54585	0.649
Var 36h I row2-row1	1.1017	0.601
Var 36h NI row2-row1	0.78278	0.549
Var 60h I row2-row1	0.6541	0.285
Var 60h NI row2-row1	0.98326	1
Time course 0hI-0hNI	0.98078	0.751
Time course 12hI-12hNI	0.97901	0.864
Time course 36hI-36hNI	1.16444	0.147
Time course 60hI-60hNI	4.56062	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.4003	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90511	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63316	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24732	1
Manapal/WT (break)	0.70543	0.333
Manapal/WT (red)	N/A	N/A