Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.7.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32376	0.428
27DAP/17DAP	0.58801	0.06
39DAP/27DAP	0.69452	0.435
41DAP/39DAP	0.5546	0.045
42DAP/41DAP	1.27199	0.938
43DAP/42DAP	1.12006	0.918
47DAP/43DAP	0.77261	0.369
52DAP/47DAP	0.8663	0.668
57DAP/52DAP	0.95255	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61878	0.039
17DAP/reference	0.51351	0.01
27DAP/reference	0.5414	0.015
39DAP/reference	0.53312	0.014
41DAP/reference	0.37358	0.008
42DAP/reference	0.49375	0.001
43DAP/reference	0.40838	0.014
47DAP/reference	0.46252	0.001
52DAP/reference	0.44772	0.022
57DAP/reference	0.62101	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.81275	0.036
27DAP/17DAP	0.68013	0.206
39DAP/27DAP	0.34049	0.028
41DAP/39DAP	1.06931	0.497
42DAP/41DAP	0.84079	0.143
43DAP/42DAP	0.6973	0.026
47DAP/43DAP	0.80522	0.084
52DAP/47DAP	0.87472	0.405
57DAP/52DAP	1.06078	0.929
57DAP/7DAP	0.46808	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11647	0.393
17DAP/reference	0.72872	0.012
27DAP/reference	0.48475	0.01
39DAP/reference	0.42665	0.011
41DAP/reference	0.33344	0.009
42DAP/reference	0.41303	0.011
43DAP/reference	0.30254	0.01
47DAP/reference	0.38824	0.03
52DAP/reference	0.34583	0.01
57DAP/reference	0.36155	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.42484	0.008
17DAP/reference	0.40284	0.005
27DAP/reference	0.47642	0.01
39DAP/reference	0.38573	0.008
41DAP/reference	0.47524	0.006
42DAP/reference	0.5459	0.016
43DAP/reference	0.24534	0.002
47DAP/reference	0.42697	0.007
52DAP/reference	0.24491	0.003
57DAP/reference	0.24462	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.42388	0.016
17DAP/reference	1.98566	0.15
27DAP/reference	1.36576	0.081
39DAP/reference	1.13848	0.466
41DAP/reference	0.71335	0.026
42DAP/reference	0.5132	0.015
43DAP/reference	0.49327	0.016
47DAP/reference	0.42549	0.004
52DAP/reference	0.4642	0.055
57DAP/reference	1.06995	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97944	1
26DAP/20DAP	1.15289	0.642
34DAP/26DAP	0.78421	0.084
51DAP/34DAP	0.4994	0.05
52DAP/51DAP	0.97738	1
53DAP/52DAP	0.62447	0.049
55DAP/53DAP	0.67452	0.021
57DAP/55DAP	0.88993	0.532
62DAP/57DAP	1.1305	0.622
68DAP/62DAP	0.91808	0.81
68DAP/14DAP	0.9825	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.34994	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.43347	0.058
Mature Green Tomato/Ripe Tomato	14.3054	0.015
Immature Eggplant/Mature Eggplant	0.41015	0.058
Ripe Pepper/Ripe Tomato	19.5757	1
Mature Eggplant/Ripe Tomato	11.56	0.26

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	0.86083	1
1-3/M82	1.22213
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	0.72848
4-1/M82	1.70805
4-3-2/M82	1.70994
4-3/M82	N/A	N/A
5-3/M82	1.03468
6-2/M82	N/A	N/A
6-3/M82	1.50338	1
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	0.98208	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95258	1
DC3000/delta hrp 6h	0.96895	0.95
DC3000/delta hrp 12h	1.0029	1
DC3000/delta hrp 24h	0.90899	0.363

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.7627	0.099
DC3000 delta B/DC3000 delta AB	0.59917	0.117

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01403	1
Exp 36h	0.84131	0.699
Exp 60h	0.90369	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9752	1
Var 0h	1.03429	1
Var 12h I row2-row1	1.0989	0.613
Var 12h NI row2-row1	1.00845	1
Var 36h I row2-row1	0.95519	1
Var 36h NI row2-row1	1.01125	1
Var 60h I row2-row1	1.21226	0.543
Var 60h NI row2-row1	0.95346	0.977
Time course 0hI-0hNI	1.02332	0.852
Time course 12hI-12hNI	1.08722	0.526
Time course 36hI-36hNI	0.99874	0.811
Time course 60hI-60hNI	0.70174	0.011

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)	0.97187	0.862
transgenic ySAMdc/azygous control (breaker)	2.45937	0.166
transgenic ySAMdc/azygous control (red)	1.18405	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.55381	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.75175	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	14.6276	0.088
Manapal/WT (break)	7.06525	0.123
Manapal/WT (red)	2.71219	1