Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08674	0.575
27DAP/17DAP	0.95039	0.918
39DAP/27DAP	1.02885	0.857
41DAP/39DAP	1.05738	0.894
42DAP/41DAP	0.89002	1
43DAP/42DAP	1.04489	1
47DAP/43DAP	1.23174	0.659
52DAP/47DAP	0.89992	0.702
57DAP/52DAP	1.01433	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99305	0.707
17DAP/reference	1.022	0.585
27DAP/reference	1.03929	0.394
39DAP/reference	0.99979	1
41DAP/reference	1.00746	1
42DAP/reference	1.04685	0.276
43DAP/reference	0.97565	0.675
47DAP/reference	0.98424	0.473
52DAP/reference	0.84361	0.035
57DAP/reference	0.90155	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98139	0.716
27DAP/17DAP	0.98495	0.854
39DAP/27DAP	0.98073	0.804
41DAP/39DAP	1.05127	0.663
42DAP/41DAP	0.973	0.753
43DAP/42DAP	1.00937	0.585
47DAP/43DAP	0.99896	1
52DAP/47DAP	0.9293	0.546
57DAP/52DAP	0.96777	0.555
57DAP/7DAP	1.00236	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94972	0.445
17DAP/reference	1.1792	0.03
27DAP/reference	1.2145	0.03
39DAP/reference	1.3412	0.066
41DAP/reference	1.22798	0.083
42DAP/reference	1.37214	0.016
43DAP/reference	1.35738	0.017
47DAP/reference	1.15997	0.259
52DAP/reference	1.1738	0.197
57DAP/reference	1.24212	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16924	0.35
17DAP/reference	1.05846	0.127
27DAP/reference	0.94666	0.292
39DAP/reference	0.97407	0.33
41DAP/reference	0.88068	0.056
42DAP/reference	0.96322	0.392
43DAP/reference	0.9993	0.748
47DAP/reference	1.07678	0.063
52DAP/reference	0.98664	0.5
57DAP/reference	1.03413	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19204	0.067
17DAP/reference	1.09722	0.551
27DAP/reference	1.11756	0.312
39DAP/reference	1.315	0.029
41DAP/reference	1.26343	0.08
42DAP/reference	1.20658	0.167
43DAP/reference	1.16442	0.343
47DAP/reference	1.01996	1
52DAP/reference	0.9724	0.663
57DAP/reference	0.84016	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00758	0.966
26DAP/20DAP	0.98715	1
34DAP/26DAP	1.04318	0.819
51DAP/34DAP	0.96247	0.688
52DAP/51DAP	1.03308	0.542
53DAP/52DAP	1.04848	0.608
55DAP/53DAP	0.96548	0.675
57DAP/55DAP	0.98533	0.923
62DAP/57DAP	0.94815	0.871
68DAP/62DAP	0.95954	0.787
68DAP/14DAP	0.95341	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01228	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85461	0.356
Mature Green Tomato/Ripe Tomato	1.21419	0.064
Immature Eggplant/Mature Eggplant	1.29762	0.061
Ripe Pepper/Ripe Tomato	0.82185	1
Mature Eggplant/Ripe Tomato	0.70133	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95212	0.907
1-1-2/M82	0.94706	1
12-2/M82	0.96135	0.955
12-4/M82	0.96298	1
1-3/M82	0.94245	0.501
2-1-1/M82	0.95375	0.465
2-1/M82	1.36003	1
2-6/M82	1.00629	1
3-2/M82	1.0903	0.84
4-1-1/M82	1.13791	1
4-1/M82	1.04232	1
4-3-2/M82	0.87238	0.487
4-3/M82	0.80728	0.72
5-3/M82	0.97086	1
6-2/M82	0.96803	1
6-3/M82	0.99985	1
7-1/M82	0.9525	0.476
7-2/M82	0.88691	0.796
9-3-2/M82	1.03654	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72199
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.13997	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.11211
WT/WTpooled	N/A	N/A

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	0.8403	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92987	1
DC3000/delta hrp 6h	1.10444	1
DC3000/delta hrp 12h	0.98691	1
DC3000/delta hrp 24h	1.21312	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98977	1
DC3000 delta B/DC3000 delta AB	0.93464	0.511

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7968	1
Exp 36h	1.77276	0.693
Exp 60h	1.17102	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98141	1
Var 0h	1.12524	0.98
Var 12h I row2-row1	1.1317	0.216
Var 12h NI row2-row1	0.94669	0.82
Var 36h I row2-row1	0.98999	1
Var 36h NI row2-row1	0.96699	0.706
Var 60h I row2-row1	1.33046	0.562
Var 60h NI row2-row1	1.28972	0.904
Time course 0hI-0hNI	1.08305	0.833
Time course 12hI-12hNI	1.06682	0.587
Time course 36hI-36hNI	0.94653	0.127
Time course 60hI-60hNI	0.94456	0.161

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)	0.97879	0.789
transgenic ySAMdc/azygous control (breaker)	0.93554	0.49
transgenic ySAMdc/azygous control (red)	0.88892	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00681	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03876	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14277	0.307
Manapal/WT (break)	1.11521	0.183
Manapal/WT (red)	1.30688	0.15