Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.1.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95543	0.713
27DAP/17DAP	1.0792	0.871
39DAP/27DAP	0.83886	0.474
41DAP/39DAP	1.60262	0.147
42DAP/41DAP	1.05756	1
43DAP/42DAP	0.86993	0.705
47DAP/43DAP	1.09254	0.715
52DAP/47DAP	1.22729	0.535
57DAP/52DAP	0.92964	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98239	0.503
17DAP/reference	1.00194	1
27DAP/reference	1.03249	0.569
39DAP/reference	0.93578	0.455
41DAP/reference	0.97063	0.542
42DAP/reference	0.93906	0.054
43DAP/reference	0.95834	0.538
47DAP/reference	0.91452	0.021
52DAP/reference	0.87871	0.089
57DAP/reference	0.80314	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98259	0.732
27DAP/17DAP	1.0149	0.969
39DAP/27DAP	1.03785	0.659
41DAP/39DAP	1.08608	0.861
42DAP/41DAP	0.95853	0.684
43DAP/42DAP	1.00417	1
47DAP/43DAP	1.01416	0.941
52DAP/47DAP	0.97388	0.899
57DAP/52DAP	1.01795	0.899
57DAP/7DAP	1.13665	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87344	0.078
17DAP/reference	0.89169	0.016
27DAP/reference	0.85803	0.011
39DAP/reference	0.94428	0.064
41DAP/reference	0.95644	0.103
42DAP/reference	0.75656	0.016
43DAP/reference	0.86197	0.016
47DAP/reference	0.78394	0.03
52DAP/reference	0.91678	0.232
57DAP/reference	0.86131	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97952	0.72
17DAP/reference	0.90204	0.102
27DAP/reference	0.84295	0.1
39DAP/reference	0.87255	0.089
41DAP/reference	0.78117	0.022
42DAP/reference	0.83623	0.055
43DAP/reference	0.90498	0.217
47DAP/reference	0.91684	0.105
52DAP/reference	0.95155	0.143
57DAP/reference	1.05397	0.374

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90755	0.052
17DAP/reference	0.93109	0.203
27DAP/reference	0.93059	0.14
39DAP/reference	0.91023	0.025
41DAP/reference	0.92946	0.237
42DAP/reference	0.79416	0.087
43DAP/reference	0.83556	0.068
47DAP/reference	0.9673	0.452
52DAP/reference	0.88111	0.31
57DAP/reference	0.58893	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94663	0.708
26DAP/20DAP	0.97642	1
34DAP/26DAP	1.02687	1
51DAP/34DAP	0.9508	0.688
52DAP/51DAP	1.02661	0.842
53DAP/52DAP	1.03122	0.83
55DAP/53DAP	0.9485	0.325
57DAP/55DAP	1.06031	0.969
62DAP/57DAP	1.01455	1
68DAP/62DAP	1.04829	0.914
68DAP/14DAP	0.94264	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9154	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57771	0.17
Mature Green Tomato/Ripe Tomato	0.60587	0.165
Immature Eggplant/Mature Eggplant	1.51741	0.053
Ripe Pepper/Ripe Tomato	0.99106	1
Mature Eggplant/Ripe Tomato	0.87574	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01815	1
1-1-2/M82	0.92703	1
12-2/M82	1.18187	N/A
12-4/M82	0.84621	1
1-3/M82	0.9634	1
2-1-1/M82	0.9965	1
2-1/M82	0.90341	1
2-6/M82	1.02217	0.329
3-2/M82	0.93795	N/A
4-1-1/M82	0.95156	N/A
4-1/M82	0.85838	1
4-3-2/M82	0.8421	1
4-3/M82	0.96557	1
5-3/M82	1.00944	1
6-2/M82	0.98416	1
6-3/M82	1.02218	1
7-1/M82	1.2199	1
7-2/M82	0.99392	1
9-3-2/M82	0.69714	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.63257	0.358
IL7-5/WTpooled	0.58673	N/A
IL7-3/WTpooled	1.35913	0.362
IL12-4/WTpooled	1.26276	0.595
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.01435	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	1.11549	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96758	1
DC3000/delta hrp 6h	0.68984	0.942
DC3000/delta hrp 12h	1.31307	1
DC3000/delta hrp 24h	1.10462	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1054	0.441
DC3000 delta B/DC3000 delta AB	1.04541	0.614

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90857	1
Exp 36h	0.94966	0.943
Exp 60h	1.23002	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92107	1
Var 0h	1.00588	1
Var 12h I row2-row1	1.4821	0.473
Var 12h NI row2-row1	0.96083	0.82
Var 36h I row2-row1	0.9603	1
Var 36h NI row2-row1	0.92887	0.706
Var 60h I row2-row1	1.4864	0.562
Var 60h NI row2-row1	1.16652	0.904
Time course 0hI-0hNI	1.18815	0.574
Time course 12hI-12hNI	1.06927	0.684
Time course 36hI-36hNI	1.0186	0.651
Time course 60hI-60hNI	1.53563	0.008

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)	1.07101	0.384
transgenic ySAMdc/azygous control (breaker)	1.01203	1
transgenic ySAMdc/azygous control (red)	0.9036	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9868	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06012	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10786	1
Manapal/WT (break)	0.99793	1
Manapal/WT (red)	1.02053	0.863