Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.9.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91081	0.511
27DAP/17DAP	0.76797	0.272
39DAP/27DAP	0.84988	0.537
41DAP/39DAP	0.84843	0.44
42DAP/41DAP	1.40975	0.262
43DAP/42DAP	1.09347	1
47DAP/43DAP	1.08629	0.856
52DAP/47DAP	0.78035	0.45
57DAP/52DAP	1.1952	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98921	0.645
17DAP/reference	1.15613	0.112
27DAP/reference	1.27744	0.021
39DAP/reference	0.99939	0.921
41DAP/reference	1.07701	0.587
42DAP/reference	0.94395	0.12
43DAP/reference	1.08372	0.233
47DAP/reference	0.92984	0.046
52DAP/reference	1.08909	0.205
57DAP/reference	1.18496	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6921	0.036
27DAP/17DAP	0.78845	0.172
39DAP/27DAP	0.89491	0.316
41DAP/39DAP	0.81228	0.037
42DAP/41DAP	0.98785	0.812
43DAP/42DAP	1.12111	0.585
47DAP/43DAP	0.88496	0.29
52DAP/47DAP	0.8057	0.226
57DAP/52DAP	1.11387	0.598
57DAP/7DAP	0.99105	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00109	1
17DAP/reference	0.97387	0.447
27DAP/reference	1.04506	0.664
39DAP/reference	1.10529	0.436
41DAP/reference	0.79698	0.05
42DAP/reference	1.08198	0.686
43DAP/reference	1.06804	0.457
47DAP/reference	1.07885	0.647
52DAP/reference	0.8579	0.106
57DAP/reference	0.95486	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05712	0.712
17DAP/reference	1.04784	0.518
27DAP/reference	1.0773	0.639
39DAP/reference	0.99755	0.586
41DAP/reference	0.99499	0.615
42DAP/reference	1.07652	0.5
43DAP/reference	0.94654	0.438
47DAP/reference	1.01937	0.89
52DAP/reference	0.83872	0.22
57DAP/reference	0.77493	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19248	0.046
17DAP/reference	1.11254	0.39
27DAP/reference	1.1651	0.125
39DAP/reference	0.96209	0.393
41DAP/reference	1.04669	0.754
42DAP/reference	1.12211	0.287
43DAP/reference	0.95939	0.484
47DAP/reference	1.03567	1
52DAP/reference	0.96331	0.562
57DAP/reference	1.09128	0.758

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10706	1
26DAP/20DAP	0.91384	1
34DAP/26DAP	1.02598	1
51DAP/34DAP	0.98971	0.917
52DAP/51DAP	1.24169	0.232
53DAP/52DAP	1.04542	1
55DAP/53DAP	0.86655	0.445
57DAP/55DAP	1.03677	0.961
62DAP/57DAP	0.95608	0.994
68DAP/62DAP	1.19832	0.821
68DAP/14DAP	1.23437	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23592	0.099

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.48138	0.058
Mature Green Tomato/Ripe Tomato	1.42399	0.185
Immature Eggplant/Mature Eggplant	0.88372	0.096
Ripe Pepper/Ripe Tomato	1.89297	0.258
Mature Eggplant/Ripe Tomato	1.63724	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.29154
1-1-2/M82	1.20009	1
12-2/M82	0.93535
12-4/M82	1.03067	1
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	1.20759
3-2/M82	0.92114
4-1-1/M82	N/A	N/A
4-1/M82	0.68651
4-3-2/M82	1.18009
4-3/M82	1.15327
5-3/M82	1.27555	1
6-2/M82	1.12443
6-3/M82	N/A	N/A
7-1/M82	0.91279	0.803
7-2/M82	1.26394
9-3-2/M82	1.49444

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.13822	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.2381
IL12-4/WTpooled	0.97227	1
IL1-4/WTpooled	0.88573	0.476
WT/WTpooled	0.93928	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	0.88081	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94792	1
DC3000/delta hrp 6h	1.00147	0.95
DC3000/delta hrp 12h	1.03333	1
DC3000/delta hrp 24h	0.59553	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.69961	0.039
DC3000 delta B/DC3000 delta AB	0.69559	0.032

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88647	1
Exp 36h	0.75534	0.539
Exp 60h	0.72227	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02294	1
Var 0h	1.0307	0.98
Var 12h I row2-row1	0.71861	0.338
Var 12h NI row2-row1	0.94624	0.906
Var 36h I row2-row1	0.97711	1
Var 36h NI row2-row1	1.16848	0.482
Var 60h I row2-row1	1.25007	0.562
Var 60h NI row2-row1	1.05067	1
Time course 0hI-0hNI	0.96978	0.866
Time course 12hI-12hNI	0.99006	0.964
Time course 36hI-36hNI	0.90506	0.119
Time course 60hI-60hNI	0.18034	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)	1.33367	0.331
transgenic ySAMdc/azygous control (breaker)	1.69912	0.166
transgenic ySAMdc/azygous control (red)	1.31079	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95807	0.052

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.06708	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.63766	0.088
Manapal/WT (break)	2.20217	0.183
Manapal/WT (red)	2.85086	0.126