Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.05035	0.67
27DAP/17DAP	1.6528	0.839
39DAP/27DAP	0.82921	0.594
41DAP/39DAP	1.29917	0.663
42DAP/41DAP	0.92969	1
43DAP/42DAP	1.39564	0.937
47DAP/43DAP	1.5395	0.68
52DAP/47DAP	1.21737	0.989
57DAP/52DAP	0.8931	0.899

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11719	0.097
17DAP/reference	1.04532	0.813
27DAP/reference	1.13863	0.468
39DAP/reference	0.91958	0.298
41DAP/reference	0.84834	0.085
42DAP/reference	0.74337	0.001
43DAP/reference	0.97065	0.611
47DAP/reference	0.77433	0.009
52DAP/reference	0.94214	0.202
57DAP/reference	1.02853	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01603	1
27DAP/17DAP	0.85702	0.39
39DAP/27DAP	0.80199	0.035
41DAP/39DAP	1.11884	0.827
42DAP/41DAP	0.95739	0.684
43DAP/42DAP	1.12716	0.212
47DAP/43DAP	1.00281	1
52DAP/47DAP	1.0526	0.856
57DAP/52DAP	1.03781	0.79
57DAP/7DAP	0.92668	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19915	0.274
17DAP/reference	1.02836	1
27DAP/reference	0.95847	0.348
39DAP/reference	0.98156	0.552
41DAP/reference	0.99053	0.589
42DAP/reference	1.08932	0.686
43DAP/reference	0.99887	0.665
47DAP/reference	0.87139	0.222
52DAP/reference	0.8306	0.012
57DAP/reference	0.9916	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85154	0.182
17DAP/reference	0.7192	0.139
27DAP/reference	0.90037	0.054
39DAP/reference	0.80411	0.013
41DAP/reference	0.88653	0.064
42DAP/reference	0.83768	0.027
43DAP/reference	0.60202	0.011
47DAP/reference	0.69063	0.011
52DAP/reference	0.82285	0.051
57DAP/reference	0.65829	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56111	0.016
17DAP/reference	1.15681	0.394
27DAP/reference	1.03464	1
39DAP/reference	0.95957	0.393
41DAP/reference	0.83981	0.119
42DAP/reference	0.86074	0.108
43DAP/reference	0.94613	0.432
47DAP/reference	0.82779	0.066
52DAP/reference	0.82342	0.153
57DAP/reference	1.15402	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26077	0.966
26DAP/20DAP	1.04539	0.962
34DAP/26DAP	1.06053	1
51DAP/34DAP	0.97587	0.824
52DAP/51DAP	1.23411	0.075
53DAP/52DAP	0.87917	0.301
55DAP/53DAP	0.8652	0.115
57DAP/55DAP	0.91236	0.596
62DAP/57DAP	1.27024	0.569
68DAP/62DAP	1.76329	0.052
68DAP/14DAP	2.63958	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44108	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	7.46398	0.058
Mature Green Tomato/Ripe Tomato	1.44548
Immature Eggplant/Mature Eggplant	0.14013	0.057
Ripe Pepper/Ripe Tomato	18.5423
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	0.96655	1
IL2-6/WTpooled	0.99008	1
IL7-5/WTpooled	1.119	1
IL7-3/WTpooled	1.11542	0.362
IL12-4/WTpooled	1.05679	0.839
IL1-4/WTpooled	1.048	1
WT/WTpooled	1.06156	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	0.94505	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91599	1
DC3000/delta hrp 6h	1.05886	1
DC3000/delta hrp 12h	1.0438	1
DC3000/delta hrp 24h	0.3054	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.40428	0.024
DC3000 delta B/DC3000 delta AB	0.51352	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89543	1
Exp 36h	0.72674	0.449
Exp 60h	0.53003	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04467	1
Var 0h	1.09977	0.594
Var 12h I row2-row1	0.64402	0.353
Var 12h NI row2-row1	1.0103	1
Var 36h I row2-row1	0.97275	0.805
Var 36h NI row2-row1	1.37818	0.276
Var 60h I row2-row1	1.41867	0.562
Var 60h NI row2-row1	1.21621	0.904
Time course 0hI-0hNI	0.94868	0.634
Time course 12hI-12hNI	1.00533	0.9
Time course 36hI-36hNI	0.8921	0.042
Time course 60hI-60hNI	0.08854	0.006

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)	0.92816	0.428
transgenic ySAMdc/azygous control (breaker)	1.76874	0.178
transgenic ySAMdc/azygous control (red)	1.14749	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83131	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.38941	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	23.7092	0.087
Manapal/WT (break)	2.69389	0.126
Manapal/WT (red)	1.35668	0.1