Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86283	0.419
27DAP/17DAP	1.0755	0.881
39DAP/27DAP	0.92724	0.631
41DAP/39DAP	1.50865	0.691
42DAP/41DAP	1.04993	0.971
43DAP/42DAP	0.85423	0.684
47DAP/43DAP	1.1108	0.481
52DAP/47DAP	1.15181	0.918
57DAP/52DAP	0.94321	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12608	0.735
17DAP/reference	1.06665	0.201
27DAP/reference	0.87096	0.428
39DAP/reference	0.9656	0.638
41DAP/reference	1.01197	1
42DAP/reference	0.8837	0.015
43DAP/reference	0.92981	0.273
47DAP/reference	0.7757	0.083
52DAP/reference	0.90588	0.167
57DAP/reference	1.0371	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35821	0.305
27DAP/17DAP	1.17597	0.685
39DAP/27DAP	1.18806	0.565
41DAP/39DAP	0.9739	1
42DAP/41DAP	1.04301	0.927
43DAP/42DAP	1.12443	0.585
47DAP/43DAP	1.10097	0.88
52DAP/47DAP	0.93746	0.77
57DAP/52DAP	1.01917	0.798
57DAP/7DAP	0.74992	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89837	0.071
17DAP/reference	0.95245	0.295
27DAP/reference	1.02213	0.8
39DAP/reference	1.02168	1
41DAP/reference	1.05428	0.767
42DAP/reference	1.26304	0.174
43DAP/reference	1.00066	0.665
47DAP/reference	0.86304	0.222
52DAP/reference	0.91628	0.126
57DAP/reference	1.18686	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1001	0.802
17DAP/reference	0.95483	0.422
27DAP/reference	1.00991	0.79
39DAP/reference	0.89576	0.183
41DAP/reference	1.00735	0.631
42DAP/reference	0.84535	0.098
43DAP/reference	1.11918	0.59
47DAP/reference	1.06771	0.544
52DAP/reference	0.928	0.22
57DAP/reference	0.97906	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91038	0.197
17DAP/reference	1.07636	0.612
27DAP/reference	1.18336	0.052
39DAP/reference	1.08613	0.307
41DAP/reference	0.97849	0.618
42DAP/reference	0.91551	0.287
43DAP/reference	0.82056	0.036
47DAP/reference	1.05061	0.792
52DAP/reference	0.93669	0.505
57DAP/reference	0.77176	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04215	0.966
26DAP/20DAP	1.30869	0.421
34DAP/26DAP	0.98158	0.98
51DAP/34DAP	1.01186	0.96
52DAP/51DAP	0.98129	1
53DAP/52DAP	1.61972
55DAP/53DAP	1.34772	0.252
57DAP/55DAP	0.91657	0.698
62DAP/57DAP	0.98172	0.994
68DAP/62DAP	1.49155	0.36
68DAP/14DAP	1.22954	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68599	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.99509	0.077
Immature Eggplant/Mature Eggplant	2.34213
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.55048

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95224	0.944
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.23805
1-3/M82	0.75954	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.18838
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	0.87523	1
6-2/M82	0.65323
6-3/M82	0.97233
7-1/M82	N/A	N/A
7-2/M82	0.84412	0.881
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	1.05742	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86543	0.31
IL12-4/WTpooled	1.0618	0.624
IL1-4/WTpooled	1.06391	1
WT/WTpooled	1.0931	0.911

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	0.64384

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96967	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.24143	1
DC3000/delta hrp 24h	2.9716	0.023

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	1.45483

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	0.79767	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98443	1
Var 0h	1.03916	0.98
Var 12h I row2-row1	1.12004	0.263
Var 12h NI row2-row1	1.07182	1
Var 36h I row2-row1	1.20287	0.908
Var 36h NI row2-row1	0.94567	0.432
Var 60h I row2-row1	1.12806	0.562
Var 60h NI row2-row1	0.6183	1
Time course 0hI-0hNI	1.2047	0.413
Time course 12hI-12hNI	1.01016	0.994
Time course 36hI-36hNI	0.87751	0.156
Time course 60hI-60hNI	0.97598	0.646

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)	0.53524	0.237
transgenic ySAMdc/azygous control (breaker)	1.60879	1
transgenic ySAMdc/azygous control (red)	1.94172	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11059	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66819	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10745	0.307
Manapal/WT (break)	1.20532	1
Manapal/WT (red)	1.33351	0.222