Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37846	0.365
27DAP/17DAP	1.39099	0.845
39DAP/27DAP	1.24172	0.885
41DAP/39DAP	1.17736	0.904
42DAP/41DAP	1.63682	0.632
43DAP/42DAP	1.26381	0.861
47DAP/43DAP	1.02218	0.913
52DAP/47DAP	0.9975	0.729
57DAP/52DAP	0.74087	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	N/A	N/A
27DAP/reference	1.29993	0.648
39DAP/reference	1.07202
41DAP/reference	0.95662	0.814
42DAP/reference	2.28536	0.012
43DAP/reference	0.60702
47DAP/reference	1.30692	0.463
52DAP/reference	0.64232
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.8123	0.687
27DAP/17DAP	1.12276	0.976
39DAP/27DAP	0.83955	0.737
41DAP/39DAP	1.24584	0.801
42DAP/41DAP	1.20267	0.166
43DAP/42DAP	1.00116	0.928
47DAP/43DAP	1.29378	0.52
52DAP/47DAP	0.95653	0.848
57DAP/52DAP	0.86845	0.507
57DAP/7DAP	1.26532	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82136	0.122
17DAP/reference	0.73947	0.011
27DAP/reference	0.76539	0.01
39DAP/reference	0.74918	0.011
41DAP/reference	0.79221	0.06
42DAP/reference	0.63304	0.01
43DAP/reference	0.70523	0.013
47DAP/reference	0.77628	0.128
52DAP/reference	0.64638	0.012
57DAP/reference	0.63826	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14928	0.43
17DAP/reference	0.9752	0.548
27DAP/reference	1.26091	0.66
39DAP/reference	0.93197	0.314
41DAP/reference	0.95319	0.584
42DAP/reference	1.8473	0.596
43DAP/reference	1.00874	0.892
47DAP/reference	0.86676	0.069
52DAP/reference	0.83356	0.086
57DAP/reference	1.17928	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87833	0.071
17DAP/reference	0.96474	0.615
27DAP/reference	0.81451	0.065
39DAP/reference	0.74534	0.014
41DAP/reference	0.78658	0.058
42DAP/reference	0.65778	0.041
43DAP/reference	0.65388	0.056
47DAP/reference	0.99219	0.646
52DAP/reference	0.7745	0.105
57DAP/reference	0.83814	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03573	0.966
26DAP/20DAP	0.87506	1
34DAP/26DAP	1.03029	1
51DAP/34DAP	1.15977	0.108
52DAP/51DAP	1.08772	0.662
53DAP/52DAP	1.28257	0.783
55DAP/53DAP	1.43816	0.131
57DAP/55DAP	1.03174	1
62DAP/57DAP	1.0498	1
68DAP/62DAP	0.78058	0.195
68DAP/14DAP	0.7784	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00491	0.696

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	0.4599	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04317	1
1-1-2/M82	0.86742
12-2/M82	1.0223	1
12-4/M82	1.26768	0.694
1-3/M82	0.60949
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.99538	1
3-2/M82	0.84622
4-1-1/M82	1.12791
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	1.33227	0.496
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.07613	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17955	0.277
IL2-6/WTpooled	0.9811	1
IL7-5/WTpooled	0.85743	1
IL7-3/WTpooled	0.89525	1
IL12-4/WTpooled	1.06262	0.839
IL1-4/WTpooled	0.97714	1
WT/WTpooled	1.1238	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02865	0.921
DC3000/delta hrp 6h	1.37987	0.857
DC3000/delta hrp 12h	1.19166	1
DC3000/delta hrp 24h	0.93887	0.554

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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	1.00849	1
Var 12h NI row2-row1	0.82686	0.713
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.66803	1
Var 60h I row2-row1	0.88328	0.952
Var 60h NI row2-row1	0.58577	0.977
Time course 0hI-0hNI	1.09425	0.833
Time course 12hI-12hNI	0.66387	0.624
Time course 36hI-36hNI	1.02609	0.753
Time course 60hI-60hNI	0.88178	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.24358	1
transgenic ySAMdc/azygous control (red)	0.98972	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21886	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91921	1
Manapal/WT (break)	0.55978	0.255
Manapal/WT (red)	0.53623	0.36