Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.21989	0.014
27DAP/17DAP	0.73331	0.254
39DAP/27DAP	0.87193	0.594
41DAP/39DAP	1.3191	0.233
42DAP/41DAP	1.47348	0.832
43DAP/42DAP	0.89584	0.801
47DAP/43DAP	0.83932	0.504
52DAP/47DAP	1.39129	0.538
57DAP/52DAP	0.92167	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38588	0.008
17DAP/reference	0.99476	0.858
27DAP/reference	0.89661	0.047
39DAP/reference	0.81556	0.013
41DAP/reference	1.04634	0.759
42DAP/reference	0.98967	0.455
43DAP/reference	0.94642	0.287
47DAP/reference	0.94328	0.137
52DAP/reference	0.98115	0.546
57DAP/reference	0.81489	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.4818	0.025
27DAP/17DAP	0.94863	0.724
39DAP/27DAP	1.15119	0.418
41DAP/39DAP	1.16427	0.774
42DAP/41DAP	0.97825	0.762
43DAP/42DAP	0.94021	0.576
47DAP/43DAP	1.0395	0.892
52DAP/47DAP	0.92892	0.753
57DAP/52DAP	1.1234	0.462
57DAP/7DAP	0.51825	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25042	0.043
17DAP/reference	0.93567	0.072
27DAP/reference	0.87224	0.01
39DAP/reference	0.9068	0.012
41DAP/reference	0.89251	0.038
42DAP/reference	0.88616	0.031
43DAP/reference	0.80243	0.014
47DAP/reference	0.90959	0.168
52DAP/reference	0.86408	0.021
57DAP/reference	0.84457	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37608	0.043
17DAP/reference	0.96333	0.378
27DAP/reference	0.81627	0.045
39DAP/reference	0.84536	0.102
41DAP/reference	0.85532	0.071
42DAP/reference	0.90996	0.189
43DAP/reference	0.89688	0.08
47DAP/reference	0.85403	0.04
52DAP/reference	0.9542	0.187
57DAP/reference	0.99181	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30096	0.035
17DAP/reference	0.93032	0.268
27DAP/reference	0.85251	0.031
39DAP/reference	0.84927	0.015
41DAP/reference	0.86685	0.064
42DAP/reference	0.93255	0.134
43DAP/reference	0.97586	0.545
47DAP/reference	0.90771	0.103
52DAP/reference	0.73889	0.077
57DAP/reference	0.98589	0.623

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09582	0.966
26DAP/20DAP	1.37241	0.149
34DAP/26DAP	0.57401	0.067
51DAP/34DAP	0.54051	0.057
52DAP/51DAP	1.07752	0.579
53DAP/52DAP	0.90177	0.386
55DAP/53DAP	0.98862	0.876
57DAP/55DAP	1.06908	0.909
62DAP/57DAP	0.99646	1
68DAP/62DAP	1.12174	0.827
68DAP/14DAP	0.94763	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.64336	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	11.311	0.058
Mature Green Tomato/Ripe Tomato	0.8133	0.042
Immature Eggplant/Mature Eggplant	0.96783	0.808
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	28.7953	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89516	0.613
1-1-2/M82	0.78174	1
12-2/M82	1.01093	1
12-4/M82	1.04489	1
1-3/M82	0.80926
2-1-1/M82	1.47689
2-1/M82	N/A	N/A
2-6/M82	1.04182	0.505
3-2/M82	0.74491
4-1-1/M82	0.91483	1
4-1/M82	0.75106
4-3-2/M82	0.7406	0.487
4-3/M82	1.11034	1
5-3/M82	1.05029	0.378
6-2/M82	1.03988
6-3/M82	0.97662	1
7-1/M82	1.1085
7-2/M82	N/A	N/A
9-3-2/M82	0.86708	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.76948	0.212
IL2-6/WTpooled	0.81753	0.473
IL7-5/WTpooled	0.80409
IL7-3/WTpooled	1.55455	1
IL12-4/WTpooled	1.5513	0.443
IL1-4/WTpooled	1.20413
WT/WTpooled	1.04954	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	0.79231	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0097	0.921
DC3000/delta hrp 6h	1.20284	1
DC3000/delta hrp 12h	1.16087	1
DC3000/delta hrp 24h	1.0198	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02478	0.476
DC3000 delta B/DC3000 delta AB	1.04548	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67236	1
Exp 36h	2.28269	1
Exp 60h	1.22944	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94861	1
Var 0h	1.22719	0.325
Var 12h I row2-row1	1.00768	1
Var 12h NI row2-row1	0.99935	1
Var 36h I row2-row1	0.89138	0.575
Var 36h NI row2-row1	1.13658	1
Var 60h I row2-row1	1.09941	1
Var 60h NI row2-row1	1.10208	0.904
Time course 0hI-0hNI	0.95135	0.617
Time course 12hI-12hNI	1.05058	0.526
Time course 36hI-36hNI	0.92313	0.162
Time course 60hI-60hNI	0.89551	0.319

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)	0.9949	0.931
transgenic ySAMdc/azygous control (breaker)	0.87975	0.173
transgenic ySAMdc/azygous control (red)	0.95466	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02238	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.4782	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08378	1
Manapal/WT (break)	1.50669	0.13
Manapal/WT (red)	1.4806	0.413