Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.3.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74389	0.221
27DAP/17DAP	0.87026	0.69
39DAP/27DAP	1.23685	0.579
41DAP/39DAP	1.07265	0.722
42DAP/41DAP	0.93408	1
43DAP/42DAP	1.18841	0.923
47DAP/43DAP	1.05498	0.879
52DAP/47DAP	1.05746	0.906
57DAP/52DAP	0.62474	0.612

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20095	0.587
17DAP/reference	0.87397	0.031
27DAP/reference	0.78098	0.04
39DAP/reference	0.74238	0.013
41DAP/reference	0.81557	0.267
42DAP/reference	0.85323	0.103
43DAP/reference	0.60884
47DAP/reference	0.52443	0.011
52DAP/reference	0.8192	0.147
57DAP/reference	1.86787

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74198	0.062
27DAP/17DAP	1.03727	0.973
39DAP/27DAP	0.84334	0.07
41DAP/39DAP	0.99561	1
42DAP/41DAP	1.11487	0.436
43DAP/42DAP	1.02176	0.699
47DAP/43DAP	0.986	0.947
52DAP/47DAP	1.01832	0.986
57DAP/52DAP	1.01652	1
57DAP/7DAP	1.05911	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24228	0.067
17DAP/reference	1.00145	1
27DAP/reference	1.23828	0.16
39DAP/reference	0.91775	0.23
41DAP/reference	0.99306	0.677
42DAP/reference	1.29989	0.076
43DAP/reference	1.17291	0.457
47DAP/reference	1.05299	0.685
52DAP/reference	1.10519	0.328
57DAP/reference	1.07183	0.331

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75963	0.129
17DAP/reference	0.94499	0.399
27DAP/reference	1.1079	0.303
39DAP/reference	1.30302	0.316
41DAP/reference	0.94262	0.412
42DAP/reference	0.95743	0.433
43DAP/reference	0.85756	0.108
47DAP/reference	0.90289	0.246
52DAP/reference	1.05677	0.559
57DAP/reference	0.95835	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17898	0.084
17DAP/reference	1.07758	0.784
27DAP/reference	1.27743	0.111
39DAP/reference	0.94432	0.544
41DAP/reference	0.83358	0.237
42DAP/reference	1.09405	0.658
43DAP/reference	1.50209	0.04
47DAP/reference	0.81069	0.009
52DAP/reference	1.36752	1
57DAP/reference	1.36797	0.147

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.71803	0.733
26DAP/20DAP	0.62806
34DAP/26DAP	0.37773	0.067
51DAP/34DAP	1.49979	0.535
52DAP/51DAP	1.05791	0.792
53DAP/52DAP	1.08109	0.882
55DAP/53DAP	1.10113	0.955
57DAP/55DAP	1.13501	0.915
62DAP/57DAP	0.92566
68DAP/62DAP	0.80101	0.505
68DAP/14DAP	1.19476

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.60523	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.44991
Mature Green Tomato/Ripe Tomato	0.41899	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.90881

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.47516
12-2/M82	N/A	N/A
12-4/M82	0.49381	0.33
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	1.01949	1
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	0.94113	1
IL2-6/WTpooled	1.46901
IL7-5/WTpooled	0.47161
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.82874
IL1-4/WTpooled	1.03231	1
WT/WTpooled	1.19688	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	0.92668	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.35946	0.921
DC3000/delta hrp 6h	0.76512	0.95
DC3000/delta hrp 12h	1.03545
DC3000/delta hrp 24h	1.2341	0.595

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	0.75113	1
Exp 36h	1.61435	0.693
Exp 60h	1.436	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0554	1
Var 0h	1.08828	0.22
Var 12h I row2-row1	0.67458	0.357
Var 12h NI row2-row1	0.93529	0.82
Var 36h I row2-row1	0.96994	1
Var 36h NI row2-row1	1.16296	1
Var 60h I row2-row1	2.25204	0.562
Var 60h NI row2-row1	1.09057	0.904
Time course 0hI-0hNI	0.95975	0.787
Time course 12hI-12hNI	1.06234	0.738
Time course 36hI-36hNI	0.75582	0.023
Time course 60hI-60hNI	0.10979	0.005

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)	1.69723	0.286
transgenic ySAMdc/azygous control (breaker)	0.77691	0.49
transgenic ySAMdc/azygous control (red)	0.98167	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06774	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90902	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20111	1
Manapal/WT (break)	2.39369	0.13
Manapal/WT (red)	N/A	N/A