Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.4.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00906	0.975
27DAP/17DAP	1.45263	0.809
39DAP/27DAP	0.92794	0.67
41DAP/39DAP	1.36317	0.212
42DAP/41DAP	1.15739	0.868
43DAP/42DAP	1.02081	0.937
47DAP/43DAP	0.97861	0.828
52DAP/47DAP	0.95138	0.821
57DAP/52DAP	0.88062	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96507	0.412
17DAP/reference	1.06632	0.161
27DAP/reference	1.06165	0.216
39DAP/reference	1.08313	0.079
41DAP/reference	1.16575	0.025
42DAP/reference	0.98452	0.295
43DAP/reference	1.03015	0.569
47DAP/reference	0.99438	0.602
52DAP/reference	0.96383	0.475
57DAP/reference	0.92188	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90476	0.185
27DAP/17DAP	0.99783	0.969
39DAP/27DAP	1.02332	0.691
41DAP/39DAP	1.10736	0.774
42DAP/41DAP	0.93643	0.495
43DAP/42DAP	0.99725	1
47DAP/43DAP	1.02062	0.884
52DAP/47DAP	0.98152	0.901
57DAP/52DAP	1.0342	0.813
57DAP/7DAP	1.14342	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8289	0.088
17DAP/reference	0.8649	0.072
27DAP/reference	0.87323	0.076
39DAP/reference	0.8873	0.023
41DAP/reference	0.91673	0.04
42DAP/reference	0.81114	0.023
43DAP/reference	0.89272	0.038
47DAP/reference	0.85672	0.079
52DAP/reference	0.85642	0.097
57DAP/reference	0.87423	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99737	0.951
17DAP/reference	0.9482	0.253
27DAP/reference	1.50126	0.526
39DAP/reference	0.83735	0.132
41DAP/reference	0.89379	0.137
42DAP/reference	0.96058	0.392
43DAP/reference	0.91806	0.157
47DAP/reference	1.09307	0.256
52DAP/reference	0.96035	0.111
57DAP/reference	0.96337	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85083	0.047
17DAP/reference	0.94014	0.374
27DAP/reference	0.93923	0.302
39DAP/reference	0.83145	0.01
41DAP/reference	0.86379	0.096
42DAP/reference	0.73336	0.023
43DAP/reference	0.85028	0.084
47DAP/reference	0.91711	0.259
52DAP/reference	0.75469	0.142
57DAP/reference	0.58157	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04829	0.966
26DAP/20DAP	0.94593	0.317
34DAP/26DAP	1.06478	0.542
51DAP/34DAP	1.03485	0.73
52DAP/51DAP	1.0313	0.77
53DAP/52DAP	0.93744	0.64
55DAP/53DAP	1.04666	0.813
57DAP/55DAP	1.14402	0.424
62DAP/57DAP	1.09456	0.393
68DAP/62DAP	1.02766	0.991
68DAP/14DAP	0.9509	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00083	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.37191	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.69562	0.05
Ripe Pepper/Ripe Tomato	1.18039	1
Mature Eggplant/Ripe Tomato	2.90218	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96219	0.934
1-1-2/M82	0.95436	1
12-2/M82	1.06276	1
12-4/M82	1.09321	1
1-3/M82	0.78055	0.378
2-1-1/M82	1.28417	N/A
2-1/M82	N/A	N/A
2-6/M82	1.09393	0.594
3-2/M82	0.94007	1
4-1-1/M82	0.88296	1
4-1/M82	0.93916	N/A
4-3-2/M82	0.73533	N/A
4-3/M82	0.80775	1
5-3/M82	0.91168	0.23
6-2/M82	1.08218	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.97196	1
9-3-2/M82	1.20297	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.13636	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87639	0.418
IL12-4/WTpooled	1.01575	1
IL1-4/WTpooled	0.92422	N/A
WT/WTpooled	0.91142	0.873

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	0.88117	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90343	0.697
DC3000/delta hrp 6h	1.08505	1
DC3000/delta hrp 12h	1.04388	1
DC3000/delta hrp 24h	1.13421	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20581	0.044
DC3000 delta B/DC3000 delta AB	1.09915	0.353

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02197	1
Exp 36h	0.66442	0.406
Exp 60h	0.64604	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98106	1
Var 0h	0.7106	1
Var 12h I row2-row1	1.05839	0.406
Var 12h NI row2-row1	0.9764	0.82
Var 36h I row2-row1	1.00818	1
Var 36h NI row2-row1	1.09163	0.253
Var 60h I row2-row1	1.22679	1
Var 60h NI row2-row1	1.11501	0.904
Time course 0hI-0hNI	1.05054	0.867
Time course 12hI-12hNI	1.01094	0.867
Time course 36hI-36hNI	0.88152	0.053
Time course 60hI-60hNI	1.0037	1

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)	1.20278	0.289
transgenic ySAMdc/azygous control (breaker)	1.35988	0.248
transgenic ySAMdc/azygous control (red)	1.19742	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9491	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.56999	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.04065	0.087
Manapal/WT (break)	2.12208	0.123
Manapal/WT (red)	1.59634	0.222