Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89819	0.522
27DAP/17DAP	0.94875	0.934
39DAP/27DAP	0.89118	0.583
41DAP/39DAP	1.13161	0.624
42DAP/41DAP	0.98446	1
43DAP/42DAP	1.05465	0.945
47DAP/43DAP	0.99018	0.825
52DAP/47DAP	1.22151	0.819
57DAP/52DAP	0.95872	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02314	1
17DAP/reference	1.01636	0.696
27DAP/reference	0.97229	0.525
39DAP/reference	0.94063	0.284
41DAP/reference	0.9546	0.341
42DAP/reference	0.90814	0.019
43DAP/reference	1.04788	0.678
47DAP/reference	0.91068	0.032
52DAP/reference	0.81129	0.04
57DAP/reference	0.84708	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04562	0.536
27DAP/17DAP	1.02023	0.942
39DAP/27DAP	1.02132	0.718
41DAP/39DAP	1.01441	0.876
42DAP/41DAP	1.00336	0.939
43DAP/42DAP	1.00525	0.788
47DAP/43DAP	0.99642	0.997
52DAP/47DAP	1.0147	0.973
57DAP/52DAP	1.00703	1
57DAP/7DAP	0.98534	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96804	0.361
17DAP/reference	0.9179	0.011
27DAP/reference	0.89903	0.01
39DAP/reference	0.9576	0.083
41DAP/reference	0.95607	0.146
42DAP/reference	0.88689	0.032
43DAP/reference	0.90786	0.019
47DAP/reference	0.92657	0.293
52DAP/reference	0.90991	0.014
57DAP/reference	0.87421	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13852	0.17
17DAP/reference	0.87946	0.109
27DAP/reference	0.84677	0.104
39DAP/reference	0.89497	0.122
41DAP/reference	0.87161	0.118
42DAP/reference	0.75167	0.027
43DAP/reference	0.97154	0.569
47DAP/reference	0.87191	0.021
52DAP/reference	0.87534	0.012
57DAP/reference	1.10743	0.306

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9429	0.112
17DAP/reference	0.90348	0.234
27DAP/reference	0.92258	0.046
39DAP/reference	0.88496	0.014
41DAP/reference	0.94372	0.185
42DAP/reference	0.8642	0.041
43DAP/reference	0.79907	0.079
47DAP/reference	0.9263	0.259
52DAP/reference	0.91009	0.163
57DAP/reference	0.71989	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91795	0.981
26DAP/20DAP	0.95794	1
34DAP/26DAP	0.95761	0.627
51DAP/34DAP	1.09497	0.565
52DAP/51DAP	0.9842	1
53DAP/52DAP	0.87906
55DAP/53DAP	0.98162	0.746
57DAP/55DAP	1.05281	0.935
62DAP/57DAP	1.24409	0.8
68DAP/62DAP	1.08269	1
68DAP/14DAP	1.02157	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03627	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22075	0.059
Mature Green Tomato/Ripe Tomato	1.62917	0.209
Immature Eggplant/Mature Eggplant	2.14958	0.05
Ripe Pepper/Ripe Tomato	0.75795	1
Mature Eggplant/Ripe Tomato	0.88464	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27139	0.551
1-1-2/M82	1.04328	0.977
12-2/M82	1.17213	1
12-4/M82	0.94722	1
1-3/M82	1.13216	1
2-1-1/M82	0.8776	0.92
2-1/M82	0.72789	0.322
2-6/M82	1.12719	0.505
3-2/M82	1.00705	1
4-1-1/M82	1.01076	1
4-1/M82	1.1088	0.512
4-3-2/M82	0.9814	1
4-3/M82	1.34244	0.268
5-3/M82	0.85976	0.642
6-2/M82	1.04689
6-3/M82	0.789	1
7-1/M82	0.88624	1
7-2/M82	0.98955	1
9-3-2/M82	0.88348	0.449

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	0.63868	0.71
IL1-4/WTpooled	0.90171
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	0.99748	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01682	0.914
DC3000/delta hrp 6h	0.94739	0.95
DC3000/delta hrp 12h	1.11422	1
DC3000/delta hrp 24h	1.14537	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98665	1
DC3000 delta B/DC3000 delta AB	0.9948	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03105	1
Exp 36h	1.7768	0.326
Exp 60h	1.5616	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99643	1
Var 0h	0.51424	0.98
Var 12h I row2-row1	1.12149	0.272
Var 12h NI row2-row1	0.98025	0.713
Var 36h I row2-row1	0.92171	0.805
Var 36h NI row2-row1	0.98185	0.706
Var 60h I row2-row1	1.00189	1
Var 60h NI row2-row1	0.96109	0.818
Time course 0hI-0hNI	1.00319	1
Time course 12hI-12hNI	1.10316	0.062
Time course 36hI-36hNI	1.16051	0.01
Time course 60hI-60hNI	1.43596	0.008

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)	1.1056	0.36
transgenic ySAMdc/azygous control (breaker)	2.33641	0.178
transgenic ySAMdc/azygous control (red)	0.94453	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00744	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95118	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95995	1
Manapal/WT (break)	1.21461	1
Manapal/WT (red)	0.96127	0.728