Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83393	0.303
27DAP/17DAP	1.09847	1
39DAP/27DAP	0.80808	0.41
41DAP/39DAP	0.82683	0.389
42DAP/41DAP	1.34312	0.702
43DAP/42DAP	0.94509	0.877
47DAP/43DAP	1.00544	0.934
52DAP/47DAP	1.30342	0.478
57DAP/52DAP	1.2576	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92023	0.262
17DAP/reference	0.86761	0.147
27DAP/reference	1.04956	0.782
39DAP/reference	0.8873	0.149
41DAP/reference	0.7934	0.085
42DAP/reference	0.8264	0.007
43DAP/reference	0.93029	0.234
47DAP/reference	0.92569	0.137
52DAP/reference	1.02863	0.912
57DAP/reference	1.11786	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03639	0.99
27DAP/17DAP	1.17896	0.968
39DAP/27DAP	1.11745	0.603
41DAP/39DAP	1.00701	0.923
42DAP/41DAP	1.04752	1
43DAP/42DAP	0.83998	0.029
47DAP/43DAP	0.97141	0.896
52DAP/47DAP	1.05988	0.892
57DAP/52DAP	0.86157	0.528
57DAP/7DAP	0.8928	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20188	0.223
17DAP/reference	1.1198	0.328
27DAP/reference	0.94819	0.325
39DAP/reference	1.05248	1
41DAP/reference	1.21705	0.041
42DAP/reference	0.94179	0.338
43DAP/reference	1.14317	0.111
47DAP/reference	0.93826	0.383
52DAP/reference	0.92517	0.304
57DAP/reference	1.05183	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2794	0.337
17DAP/reference	0.87572	0.08
27DAP/reference	0.99395	0.686
39DAP/reference	1.01774	1
41DAP/reference	0.9576	0.357
42DAP/reference	0.87146	0.073
43DAP/reference	1.06281	0.751
47DAP/reference	0.88318	0.033
52DAP/reference	0.8915	0.037
57DAP/reference	0.7909	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11232	0.207
17DAP/reference	1.03787	0.956
27DAP/reference	1.04446	0.621
39DAP/reference	0.9663	0.544
41DAP/reference	0.89409	0.148
42DAP/reference	0.88298	0.22
43DAP/reference	0.82294	0.11
47DAP/reference	1.05749	0.877
52DAP/reference	1.33064	0.436
57DAP/reference	1.05822	0.549

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.49902	0.496
26DAP/20DAP	1.36961	0.129
34DAP/26DAP	0.8435	0.309
51DAP/34DAP	1.09351	0.692
52DAP/51DAP	1.22491	0.09
53DAP/52DAP	0.90593	0.631
55DAP/53DAP	0.80294	0.303
57DAP/55DAP	1.09858	0.955
62DAP/57DAP	1.18448	0.622
68DAP/62DAP	0.95587	0.81
68DAP/14DAP	1.06792	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74214	0.043

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.4153	0.113
Mature Green Tomato/Ripe Tomato	1.96796	0.478
Immature Eggplant/Mature Eggplant	0.77831	0.066
Ripe Pepper/Ripe Tomato	2.46022	0.233
Mature Eggplant/Ripe Tomato	4.66556	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.04817	0.972
12-2/M82	N/A	N/A
12-4/M82	0.99257	1
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	1.29891	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	1.01436
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90704	0.243
IL2-6/WTpooled	0.90049	0.473
IL7-5/WTpooled	0.99535	1
IL7-3/WTpooled	0.89907	0.418
IL12-4/WTpooled	0.96235	1
IL1-4/WTpooled	1.01792	1
WT/WTpooled	0.92714	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	0.88911	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87421	1
DC3000/delta hrp 6h	1.04922	0.95
DC3000/delta hrp 12h	0.84988	1
DC3000/delta hrp 24h	0.90141	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.36628	0.476
DC3000 delta B/DC3000 delta AB	0.9822

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01861	1
Exp 36h	0.80797	0.449
Exp 60h	1.05146	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05323	1
Var 0h	12.6334	0.98
Var 12h I row2-row1	0.84514	0.353
Var 12h NI row2-row1	1.08855	0.649
Var 36h I row2-row1	1.25946	0.908
Var 36h NI row2-row1	0.71424	0.743
Var 60h I row2-row1	0.90277	0.832
Var 60h NI row2-row1	0.84664	0.63
Time course 0hI-0hNI	1.02964	0.852
Time course 12hI-12hNI	1.009	0.888
Time course 36hI-36hNI	1.18066	0.006
Time course 60hI-60hNI	1.08529	0.16

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)	1.08496	0.292
transgenic ySAMdc/azygous control (breaker)	0.97778	1
transgenic ySAMdc/azygous control (red)	0.94291	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04089	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.851	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7461	1
Manapal/WT (break)	1.15855	0.14
Manapal/WT (red)	0.95833	0.503