Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.7.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14057	0.863
27DAP/17DAP	0.99717	1
39DAP/27DAP	1.06829	0.919
41DAP/39DAP	1.08641	0.96
42DAP/41DAP	1.06546	0.958
43DAP/42DAP	1.04457	1
47DAP/43DAP	1.2214	0.618
52DAP/47DAP	0.94678	0.75
57DAP/52DAP	1.05328	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94429	0.412
17DAP/reference	0.97766	0.567
27DAP/reference	0.98866	0.694
39DAP/reference	1.01654	0.786
41DAP/reference	0.9893	0.814
42DAP/reference	0.88499	0.003
43DAP/reference	0.98638	0.728
47DAP/reference	0.95247	0.09
52DAP/reference	0.86741	0.167
57DAP/reference	0.80754	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98033	0.679
27DAP/17DAP	0.99534	0.969
39DAP/27DAP	0.97158	0.737
41DAP/39DAP	0.97458	0.959
42DAP/41DAP	1.0462	0.763
43DAP/42DAP	0.9901	0.875
47DAP/43DAP	1.00681	0.948
52DAP/47DAP	1.01416	0.956
57DAP/52DAP	0.9846	0.75
57DAP/7DAP	0.96901	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91902	0.168
17DAP/reference	0.89514	0.012
27DAP/reference	0.8949	0.012
39DAP/reference	0.91605	0.012
41DAP/reference	0.89877	0.052
42DAP/reference	0.97141	0.482
43DAP/reference	0.86941	0.011
47DAP/reference	0.84976	0.066
52DAP/reference	0.94597	0.115
57DAP/reference	0.87936	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06608	0.325
17DAP/reference	0.96776	0.523
27DAP/reference	0.81619	0.123
39DAP/reference	0.87701	0.136
41DAP/reference	0.85431	0.044
42DAP/reference	0.76971	0.012
43DAP/reference	1.0326	0.835
47DAP/reference	0.89458	0.032
52DAP/reference	1.02818	0.629
57DAP/reference	1.05128	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94708	0.034
17DAP/reference	0.94469	0.417
27DAP/reference	0.93726	0.067
39DAP/reference	0.91194	0.012
41DAP/reference	0.91626	0.293
42DAP/reference	0.81111	0.172
43DAP/reference	0.78222	0.171
47DAP/reference	0.95513	0.434
52DAP/reference	0.94886	0.415
57DAP/reference	0.54833	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01943	1
26DAP/20DAP	1.1105	0.558
34DAP/26DAP	0.97346	0.803
51DAP/34DAP	1.09467	0.524
52DAP/51DAP	1.02277	0.808
53DAP/52DAP	0.98493	0.96
55DAP/53DAP	0.97002	0.725
57DAP/55DAP	0.90624	0.606
62DAP/57DAP	0.96177	0.162
68DAP/62DAP	0.81321	0.747
68DAP/14DAP	0.61137

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94965	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.10431	0.417
Mature Green Tomato/Ripe Tomato	1.18452	0.299
Immature Eggplant/Mature Eggplant	0.72573
Ripe Pepper/Ripe Tomato	0.36114
Mature Eggplant/Ripe Tomato	1.34226	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04639	0.877
1-1-2/M82	N/A	N/A
12-2/M82	0.92202
12-4/M82	1.05185	1
1-3/M82	0.93249	0.441
2-1-1/M82	1.04833	1
2-1/M82	1.02947	1
2-6/M82	0.8558	1
3-2/M82	1.11356
4-1-1/M82	1.16036
4-1/M82	0.9721
4-3-2/M82	1.16361	0.508
4-3/M82	0.86712	0.72
5-3/M82	0.98341	1
6-2/M82	1.06402	1
6-3/M82	1.08036	1
7-1/M82	0.89656	1
7-2/M82	0.99157	1
9-3-2/M82	0.86064	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.65067	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.77458	0.362
IL12-4/WTpooled	1.45925	0.531
IL1-4/WTpooled	1.07578
WT/WTpooled	0.95847	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	0.7922	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03809	0.914
DC3000/delta hrp 6h	1.21784	1
DC3000/delta hrp 12h	1.16185	1
DC3000/delta hrp 24h	0.99129	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99124	1
DC3000 delta B/DC3000 delta AB	0.9818	0.916

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.802	1
Exp 36h	1.11654	0.943
Exp 60h	1.06777	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9979	1
Var 0h	1.21765	0.594
Var 12h I row2-row1	1.10442	0.196
Var 12h NI row2-row1	1.04706	1
Var 36h I row2-row1	0.98396	1
Var 36h NI row2-row1	0.87982	0.584
Var 60h I row2-row1	1.09388	1
Var 60h NI row2-row1	1.08392	0.904
Time course 0hI-0hNI	1.02203	1
Time course 12hI-12hNI	1.02653	0.836
Time course 36hI-36hNI	0.98339	0.589
Time course 60hI-60hNI	0.9955	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)	0.97766	0.614
transgenic ySAMdc/azygous control (breaker)	0.99412	1
transgenic ySAMdc/azygous control (red)	0.98091	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95391	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.43447	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8983	1
Manapal/WT (break)	1.04597	1
Manapal/WT (red)	1.01383	1