Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.4.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10421	0.697
27DAP/17DAP	0.84651	0.622
39DAP/27DAP	0.94773	0.631
41DAP/39DAP	1.08273	0.685
42DAP/41DAP	1.0238	1
43DAP/42DAP	1.09664	0.962
47DAP/43DAP	1.01507	0.95
52DAP/47DAP	0.95323	0.842
57DAP/52DAP	0.96942	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89458	0.101
17DAP/reference	1.01192	0.907
27DAP/reference	0.99379	0.797
39DAP/reference	1.04568	0.557
41DAP/reference	0.96798	0.667
42DAP/reference	0.88293	0.034
43DAP/reference	0.98371	0.691
47DAP/reference	0.94856	0.098
52DAP/reference	0.90806	0.244
57DAP/reference	1.05965	0.249

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09025	0.569
27DAP/17DAP	0.9169	0.748
39DAP/27DAP	0.94472	0.579
41DAP/39DAP	1.03445	0.914
42DAP/41DAP	0.90166	0.396
43DAP/42DAP	0.79804	0.197
47DAP/43DAP	0.98441	0.923
52DAP/47DAP	1.03571	0.9
57DAP/52DAP	1.00702	0.907
57DAP/7DAP	1.02152	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85994	0.108
17DAP/reference	0.95642	0.295
27DAP/reference	1.34882	0.013
39DAP/reference	0.88149	0.095
41DAP/reference	1.06099	0.43
42DAP/reference	1.01138	1
43DAP/reference	1.00182	0.764
47DAP/reference	0.88024	0.101
52DAP/reference	0.90546	0.179
57DAP/reference	0.89874	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15067	0.35
17DAP/reference	0.89498	0.23
27DAP/reference	1.00716	1
39DAP/reference	1.00573	1
41DAP/reference	0.94399	0.331
42DAP/reference	1.00582	1
43DAP/reference	1.27369	0.235
47DAP/reference	0.94464	0.194
52DAP/reference	1.09396	0.471
57DAP/reference	1.15659	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94686	0.391
17DAP/reference	1.05763	0.65
27DAP/reference	0.98029	0.594
39DAP/reference	0.98453	0.591
41DAP/reference	1.02955	1
42DAP/reference	1.0098	1
43DAP/reference	0.75941	0.028
47DAP/reference	0.86884	0.183
52DAP/reference	0.95406	0.405
57DAP/reference	0.78417	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20037	0.966
26DAP/20DAP	0.77879	0.512
34DAP/26DAP	1.0796	0.819
51DAP/34DAP	1.08431	0.785
52DAP/51DAP	0.90231	1
53DAP/52DAP	0.88535	0.379
55DAP/53DAP	1.06004	0.764
57DAP/55DAP	0.98399	0.863
62DAP/57DAP	1.02485	1
68DAP/62DAP	1.31666	0.869
68DAP/14DAP	1.21963	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83781	0.048

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67452	0.194
Mature Green Tomato/Ripe Tomato	1.3795	0.119
Immature Eggplant/Mature Eggplant	1.31885	0.052
Ripe Pepper/Ripe Tomato	1.27609	1
Mature Eggplant/Ripe Tomato	1.45524	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.064	0.742
1-1-2/M82	0.94501	1
12-2/M82	1.23034	1
12-4/M82	0.87197	1
1-3/M82	0.86016	0.441
2-1-1/M82	1.16484
2-1/M82	1.12595
2-6/M82	1.06677	1
3-2/M82	0.93377	1
4-1-1/M82	1.05813	1
4-1/M82	1.26266
4-3-2/M82	0.87357	1
4-3/M82	0.79693	0.72
5-3/M82	0.9683	1
6-2/M82	0.89907
6-3/M82	1.16274
7-1/M82	1.15664	1
7-2/M82	0.93855	0.881
9-3-2/M82	0.85214	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.42255
IL2-6/WTpooled	0.91728	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.09268	1
IL12-4/WTpooled	0.84815	0.581
IL1-4/WTpooled	1.03359
WT/WTpooled	0.97042	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	0.99143	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93451	1
DC3000/delta hrp 6h	1.17219	1
DC3000/delta hrp 12h	1.08171	1
DC3000/delta hrp 24h	1.11289	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11106
DC3000 delta B/DC3000 delta AB	1.50446	0.614

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95215	1
Exp 36h	1.09492	1
Exp 60h	1.26159	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.76626	0.291
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.00948	0.921
transgenic ySAMdc/azygous control (breaker)	1.14825	0.178
transgenic ySAMdc/azygous control (red)	0.86176	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06213	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82704	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00232	1
Manapal/WT (break)	0.98939	1
Manapal/WT (red)	0.85825	0.315