Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.2.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90375	0.551
27DAP/17DAP	0.72527	0.206
39DAP/27DAP	3.04859	0.804
41DAP/39DAP	1.38304	0.222
42DAP/41DAP	0.9526	1
43DAP/42DAP	1.09004	1
47DAP/43DAP	1.55578	0.746
52DAP/47DAP	1.40475	0.709
57DAP/52DAP	1.29787	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9952	0.743
17DAP/reference	1.45383	0.585
27DAP/reference	1.15952	N/A
39DAP/reference	0.98811	0.841
41DAP/reference	1.4098	N/A
42DAP/reference	1.83044	0.003
43DAP/reference	N/A	N/A
47DAP/reference	1.09137	0.72
52DAP/reference	N/A	N/A
57DAP/reference	2.14875	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69907	0.363
27DAP/17DAP	1.55377	0.311
39DAP/27DAP	0.97441	0.997
41DAP/39DAP	1.57124	0.774
42DAP/41DAP	1.3973	0.487
43DAP/42DAP	1.15877	0.478
47DAP/43DAP	1.74999	0.03
52DAP/47DAP	0.70363	0.42
57DAP/52DAP	1.29719	0.24
57DAP/7DAP	1.10182	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7834	0.095
17DAP/reference	0.76641	0.108
27DAP/reference	0.84582	0.185
39DAP/reference	1.00128	0.745
41DAP/reference	0.79446	0.056
42DAP/reference	0.89285	0.222
43DAP/reference	0.92066	0.11
47DAP/reference	1.39497	0.13
52DAP/reference	0.95937	0.278
57DAP/reference	0.89553	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96676	N/A
17DAP/reference	0.84193	0.139
27DAP/reference	0.94771	0.188
39DAP/reference	2.23596	0.686
41DAP/reference	N/A	N/A
42DAP/reference	N/A	N/A
43DAP/reference	N/A	N/A
47DAP/reference	N/A	N/A
52DAP/reference	N/A	N/A
57DAP/reference	1.61815	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0132	0.75
17DAP/reference	0.61807	0.124
27DAP/reference	N/A	N/A
39DAP/reference	1.07094	0.596
41DAP/reference	1.41574	0.039
42DAP/reference	1.49607	0.086
43DAP/reference	1.76852	0.009
47DAP/reference	1.67462	N/A
52DAP/reference	1.18499	0.89
57DAP/reference	1.70081	N/A

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.64984	0.207
26DAP/20DAP	0.49907	N/A
34DAP/26DAP	2.1912	N/A
51DAP/34DAP	1.85599	0.565
52DAP/51DAP	1.13596	N/A
53DAP/52DAP	0.60545	0.099
55DAP/53DAP	1.66117	0.634
57DAP/55DAP	1.61364	0.073
62DAP/57DAP	1.31337	N/A
68DAP/62DAP	1.8089	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

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	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9737	1
IL2-6/WTpooled	1.05041	0.441
IL7-5/WTpooled	1.11556	1
IL7-3/WTpooled	0.92431	1
IL12-4/WTpooled	0.9736	1
IL1-4/WTpooled	1.06082	1
WT/WTpooled	1.00696	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	53.1679	N/A

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	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A