Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.31797	0.05
27DAP/17DAP	0.67917	0.126
39DAP/27DAP	1.85535	0.122
41DAP/39DAP	0.97526	0.735
42DAP/41DAP	2.05909	0.199
43DAP/42DAP	0.40979	0.346
47DAP/43DAP	0.26252	0.046
52DAP/47DAP	0.81809	0.54
57DAP/52DAP	0.823	0.8

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16689	0.052
17DAP/reference	1.4343	0.038
27DAP/reference	1.19549	0.246
39DAP/reference	1.03449	0.664
41DAP/reference	1.20607	0.036
42DAP/reference	1.16264	0.072
43DAP/reference	1.04623	0.36
47DAP/reference	0.99728	0.636
52DAP/reference	0.82034	0.047
57DAP/reference	0.89838	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.50855	0.054
27DAP/17DAP	0.48153	0.135
39DAP/27DAP	2.39295	0.08
41DAP/39DAP	0.6949	0.112
42DAP/41DAP	1.4282	0.155
43DAP/42DAP	0.89059	0.367
47DAP/43DAP	0.58174	0.009
52DAP/47DAP	1.36323	0.276
57DAP/52DAP	0.59615	0.068
57DAP/7DAP	1.26027	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52392	0.026
17DAP/reference	1.19299	0.123
27DAP/reference	1.22159	0.073
39DAP/reference	1.81736	0.008
41DAP/reference	1.23929	0.101
42DAP/reference	1.06104	1
43DAP/reference	1.13105	0.256
47DAP/reference	0.99512	1
52DAP/reference	1.05662	0.941
57DAP/reference	0.91988	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08852	0.626
17DAP/reference	1.21213	0.072
27DAP/reference	1.39566	0.037
39DAP/reference	2.18614	0.011
41DAP/reference	1.1009	0.309
42DAP/reference	1.26321	0.153
43DAP/reference	0.89927	0.257
47DAP/reference	1.10544	0.282
52DAP/reference	0.99026	0.576
57DAP/reference	0.99957	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2844	0.018
17DAP/reference	1.1784	0.126
27DAP/reference	1.27138	0.115
39DAP/reference	1.05149	0.733
41DAP/reference	1.14726	0.086
42DAP/reference	1.19905	0.34
43DAP/reference	1.16997	0.343
47DAP/reference	0.74304	0.024
52DAP/reference	1.10061	0.674
57DAP/reference	1.18669	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10816	1
26DAP/20DAP	0.66742	0.228
34DAP/26DAP	1.26123	0.19
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.49657	0.078
53DAP/52DAP	0.74158	0.05
55DAP/53DAP	0.56977	0.106
57DAP/55DAP	0.86277	0.577
62DAP/57DAP	0.58755	0.088
68DAP/62DAP	1.13824	0.657
68DAP/14DAP	1.71523	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.90104	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.91355
Mature Green Tomato/Ripe Tomato	27.2751	0.015
Immature Eggplant/Mature Eggplant	5.34651	0.05
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	0.95817
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	1.02673	1
IL2-6/WTpooled	0.94608	1
IL7-5/WTpooled	1.02481	1
IL7-3/WTpooled	1.08015	1
IL12-4/WTpooled	0.84652	0.581
IL1-4/WTpooled	1.08715	0.426
WT/WTpooled	0.86619	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	1.11008	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94818	1
DC3000/delta hrp 6h	1.19475	1
DC3000/delta hrp 12h	1.16268	1
DC3000/delta hrp 24h	0.42655	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71023	0.088
DC3000 delta B/DC3000 delta AB	0.62904	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84481	1
Exp 36h	0.79893	0.504
Exp 60h	0.80314	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97501	1
Var 0h	0.76924	0.933
Var 12h I row2-row1	0.77283	0.39
Var 12h NI row2-row1	1.16438	1
Var 36h I row2-row1	1.20279	0.309
Var 36h NI row2-row1	1.20229	1
Var 60h I row2-row1	1.14197	0.523
Var 60h NI row2-row1	1.16566	0.904
Time course 0hI-0hNI	1.07114	0.799
Time course 12hI-12hNI	0.79266	0.035
Time course 36hI-36hNI	0.75969	0.023
Time course 60hI-60hNI	0.26634	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)	0.98589	0.862
transgenic ySAMdc/azygous control (breaker)	1.30031	0.248
transgenic ySAMdc/azygous control (red)	0.9886	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10953	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22092	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81658	1
Manapal/WT (break)	1.21325	1
Manapal/WT (red)	1.69022	0.164