Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.14.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6182	0.428
27DAP/17DAP	1.02244	1
39DAP/27DAP	0.92861	0.663
41DAP/39DAP	1.07614	0.939
42DAP/41DAP	0.9653	1
43DAP/42DAP	1.02578	0.937
47DAP/43DAP	1.38172	0.542
52DAP/47DAP	0.79867	0.5
57DAP/52DAP	1.23451	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37831	0.025
17DAP/reference	1.21249	0.024
27DAP/reference	1.31427	0.01
39DAP/reference	0.9115	0.254
41DAP/reference	1.02361	0.624
42DAP/reference	1.06516	0.166
43DAP/reference	0.99836	0.924
47DAP/reference	1.04673	0.284
52DAP/reference	0.91404	0.223
57DAP/reference	0.94994	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9905	0.826
27DAP/17DAP	1.03949	0.957
39DAP/27DAP	1.06266	0.691
41DAP/39DAP	1.05944	0.827
42DAP/41DAP	1.01019	1
43DAP/42DAP	1.08032	0.446
47DAP/43DAP	0.87683	0.63
52DAP/47DAP	0.82381	0.074
57DAP/52DAP	0.82845	0.135
57DAP/7DAP	0.77613	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96935	0.495
17DAP/reference	1.02248	1
27DAP/reference	0.80672	0.066
39DAP/reference	1.06918	0.634
41DAP/reference	1.06627	0.812
42DAP/reference	1.01729	0.828
43DAP/reference	1.14521	0.746
47DAP/reference	0.86215	0.079
52DAP/reference	1.14787	0.171
57DAP/reference	1.03218	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36945	0.099
17DAP/reference	1.19936	0.156
27DAP/reference	1.27951	0.09
39DAP/reference	1.10372	0.705
41DAP/reference	1.30115	0.115
42DAP/reference	1.30179	0.015
43DAP/reference	0.89209	0.314
47DAP/reference	1.11731	0.079
52DAP/reference	0.8777	0.043
57DAP/reference	0.86279	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92421	0.362
17DAP/reference	1.18138	0.62
27DAP/reference	0.99514	0.657
39DAP/reference	0.81428	0.111
41DAP/reference	0.94634	0.512
42DAP/reference	1.06972	0.848
43DAP/reference	1.12681	0.16
47DAP/reference	0.94703	0.357
52DAP/reference	0.81034	0.164
57DAP/reference	1.18402	0.47

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90032	1
26DAP/20DAP	0.96225	1
34DAP/26DAP	1.14885	0.819
51DAP/34DAP	1.01073	0.937
52DAP/51DAP	1.07456	0.431
53DAP/52DAP	0.95196	0.811
55DAP/53DAP	1.14018	0.088
57DAP/55DAP	1.02413	0.986
62DAP/57DAP	0.91385	0.871
68DAP/62DAP	0.91501	0.7
68DAP/14DAP	0.79989	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41628	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.1782	0.058
Mature Green Tomato/Ripe Tomato	1.6984	0.077
Immature Eggplant/Mature Eggplant	0.45733	0.062
Ripe Pepper/Ripe Tomato	2.00226	0.258
Mature Eggplant/Ripe Tomato	5.44113

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.33147
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
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	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.92548
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	1.33175	0.277
IL2-6/WTpooled	0.61354	0.348
IL7-5/WTpooled	1.21795	0.67
IL7-3/WTpooled	1.19343	1
IL12-4/WTpooled	0.99628	1
IL1-4/WTpooled	0.91702	0.834
WT/WTpooled	0.98502	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	1.02828	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1271	0.652
DC3000/delta hrp 6h	1.10729	1
DC3000/delta hrp 12h	1.46269	1
DC3000/delta hrp 24h	0.9004

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79417	0.065
DC3000 delta B/DC3000 delta AB	0.93519	0.589

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96478	1
Exp 36h	0.81302	0.471
Exp 60h	0.83459	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98737	1
Var 0h	2.71079	1
Var 12h I row2-row1	0.83627	0.357
Var 12h NI row2-row1	0.97248	0.82
Var 36h I row2-row1	1.2397	0.742
Var 36h NI row2-row1	1.03763	1
Var 60h I row2-row1	0.98721	1
Var 60h NI row2-row1	0.96887	1
Time course 0hI-0hNI	1.02607	0.867
Time course 12hI-12hNI	0.92649	0.375
Time course 36hI-36hNI	1.01487	1
Time course 60hI-60hNI	0.51244	0.005

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)	0.89896	0.32
transgenic ySAMdc/azygous control (breaker)	1.16022	0.178
transgenic ySAMdc/azygous control (red)	0.98624	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.82851	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.42269	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.49715	0.084
Manapal/WT (break)	1.19816	0.381
Manapal/WT (red)	N/A	N/A