Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.10.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9145	0.596
27DAP/17DAP	0.8792	0.717
39DAP/27DAP	1.41222	0.192
41DAP/39DAP	0.62344	0.045
42DAP/41DAP	0.89484	1
43DAP/42DAP	1.10732	1
47DAP/43DAP	0.54873	0.052
52DAP/47DAP	0.98468	0.837
57DAP/52DAP	1.04655	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95767	0.39
17DAP/reference	0.97566	0.63
27DAP/reference	0.94851	0.471
39DAP/reference	1.18054	0.301
41DAP/reference	1.01036	1
42DAP/reference	1.21658	0.058
43DAP/reference	1.21471	0.133
47DAP/reference	1.2767	0.207
52DAP/reference	0.96946	0.461
57DAP/reference	0.99866	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9521	0.629
27DAP/17DAP	1.01879	0.954
39DAP/27DAP	0.95139	0.721
41DAP/39DAP	1.12577	1
42DAP/41DAP	1.02419	1
43DAP/42DAP	0.89629	0.336
47DAP/43DAP	0.94807	0.569
52DAP/47DAP	0.72163	0.064
57DAP/52DAP	0.9852	0.784
57DAP/7DAP	0.68072	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7645	0.072
17DAP/reference	0.72691	0.012
27DAP/reference	0.76144	0.011
39DAP/reference	1.00173	1
41DAP/reference	1.00183	0.709
42DAP/reference	1.32186	0.059
43DAP/reference	1.19039	0.325
47DAP/reference	1.1154	0.571
52DAP/reference	1.00394	0.802
57DAP/reference	0.83857	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9945	0.907
17DAP/reference	1.32597	0.191
27DAP/reference	0.87775	0.203
39DAP/reference	0.9154	0.289
41DAP/reference	0.97273	0.472
42DAP/reference	0.97274	0.534
43DAP/reference	1.09617	0.899
47DAP/reference	1.21249	0.556
52DAP/reference	0.88571	0.28
57DAP/reference	0.85084	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74875	0.034
17DAP/reference	0.90939	0.398
27DAP/reference	0.74195	0.033
39DAP/reference	0.85507	0.147
41DAP/reference	0.9701	0.512
42DAP/reference	1.48928	0.01
43DAP/reference	1.44703	0.011
47DAP/reference	1.75591	0.006
52DAP/reference	1.24801	0.837
57DAP/reference	0.98535	0.672

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78012	0.611
26DAP/20DAP	2.36953	0.099
34DAP/26DAP	0.99176	0.94
51DAP/34DAP	0.92766	0.714
52DAP/51DAP	1.24818	0.126
53DAP/52DAP	0.80057	0.207
55DAP/53DAP	1.00467	0.908
57DAP/55DAP	0.80032	0.286
62DAP/57DAP	0.89575	0.871
68DAP/62DAP	1.48301	0.754
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.54554	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.77737	0.234
Mature Green Tomato/Ripe Tomato	1.81481	0.015
Immature Eggplant/Mature Eggplant	1.49699	0.05
Ripe Pepper/Ripe Tomato	0.85918	1
Mature Eggplant/Ripe Tomato	0.38323	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.33035	0.591
1-1-2/M82	1.16749	1
12-2/M82	0.98245	0.955
12-4/M82	1.01735	1
1-3/M82	1.22527	0.277
2-1-1/M82	1.05256	1
2-1/M82	0.79977	0.519
2-6/M82	1.62573	0.425
3-2/M82	0.63819
4-1-1/M82	1.47906	0.968
4-1/M82	1.21483	1
4-3-2/M82	1.43221	1
4-3/M82	1.35546	0.268
5-3/M82	0.96108	1
6-2/M82	1.30045	1
6-3/M82	1.06736	1
7-1/M82	0.90078	0.452
7-2/M82	1.12571	0.324
9-3-2/M82	1.32579	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71681	0.243
IL2-6/WTpooled	1.1029	0.788
IL7-5/WTpooled	1.40856	0.67
IL7-3/WTpooled	1.02569	1
IL12-4/WTpooled	0.9992	1
IL1-4/WTpooled	1.13603	0.426
WT/WTpooled	0.88228	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	1.10222	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01034	1
DC3000/delta hrp 6h	0.90761	0.95
DC3000/delta hrp 12h	1.02013	1
DC3000/delta hrp 24h	0.87899	0.178

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.42962	0.06
DC3000 delta B/DC3000 delta AB	1.55877	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.63828	0.406
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	0.987	1
Var 0h	0.49035	0.933
Var 12h I row2-row1	1.15685	0.736
Var 12h NI row2-row1	1.14449	0.235
Var 36h I row2-row1	1.22807	0.41
Var 36h NI row2-row1	0.94287	0.61
Var 60h I row2-row1	0.70628	0.439
Var 60h NI row2-row1	0.79413	0.69
Time course 0hI-0hNI	1.10354	0.719
Time course 12hI-12hNI	1.0502	0.724
Time course 36hI-36hNI	1.40745	0.006
Time course 60hI-60hNI	2.94347	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)	0.91304	0.377
transgenic ySAMdc/azygous control (breaker)	1.22848	1
transgenic ySAMdc/azygous control (red)	1.05908	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97633	0.431

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.45849	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.65996	0.172
Manapal/WT (break)	0.54774	0.299
Manapal/WT (red)	0.98148	0.863