Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.11.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07634	0.932
27DAP/17DAP	1.05406	0.926
39DAP/27DAP	0.71352	0.325
41DAP/39DAP	1.71602	0.243
42DAP/41DAP	0.99133	1
43DAP/42DAP	0.97082	0.912
47DAP/43DAP	1.04238	0.909
52DAP/47DAP	1.42031	0.374
57DAP/52DAP	1.07856	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8211	0.177
17DAP/reference	0.99169
27DAP/reference	0.83141	0.037
39DAP/reference	1.00491	0.92
41DAP/reference	1.0663	0.421
42DAP/reference	0.87517	0.008
43DAP/reference	1.00651	0.982
47DAP/reference	0.84078	0.116
52DAP/reference	0.88016	0.183
57DAP/reference	0.66198	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96472	0.663
27DAP/17DAP	1.00865	1
39DAP/27DAP	1.07838	0.623
41DAP/39DAP	1.24671	0.674
42DAP/41DAP	0.98599	0.819
43DAP/42DAP	0.95508	0.684
47DAP/43DAP	1.00501	1
52DAP/47DAP	0.97989	0.917
57DAP/52DAP	1.01521	1
57DAP/7DAP	1.34177	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87271	0.224
17DAP/reference	0.8678	0.012
27DAP/reference	0.8529	0.014
39DAP/reference	0.94452	0.056
41DAP/reference	0.86798	0.032
42DAP/reference	0.89683	0.01
43DAP/reference	0.84122	0.047
47DAP/reference	0.82906	0.293
52DAP/reference	0.81323	0.057
57DAP/reference	0.8781	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89278	0.329
17DAP/reference	0.88172	0.113
27DAP/reference	0.66645	0.014
39DAP/reference	0.76331	0.065
41DAP/reference	0.7568	0.085
42DAP/reference	0.77002	0.061
43DAP/reference	0.94875	0.607
47DAP/reference	0.65676	0.137
52DAP/reference	0.87163	0.043
57DAP/reference	1.13676	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81783	0.034
17DAP/reference	0.9545	0.47
27DAP/reference	0.8829	0.031
39DAP/reference	0.84026	0.006
41DAP/reference	0.87551	0.023
42DAP/reference	1.00116	0.816
43DAP/reference	0.87833	0.017
47DAP/reference	1.86614
52DAP/reference	0.95455	0.596
57DAP/reference	1.62268	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06867	0.966
26DAP/20DAP	0.86841	0.18
34DAP/26DAP	1.09519	1
51DAP/34DAP	0.88807	0.264
52DAP/51DAP	1.15125	0.171
53DAP/52DAP	1.07377	0.819
55DAP/53DAP	1.10872	0.394
57DAP/55DAP	1.1831	0.626
62DAP/57DAP	1.1389	0.622
68DAP/62DAP	0.92261	0.227
68DAP/14DAP	0.7393	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97071	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.7475	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.79051
Mature Eggplant/Ripe Tomato	0.56588	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9046	0.934
1-1-2/M82	0.94261	1
12-2/M82	1.15935	1
12-4/M82	1.08503	0.655
1-3/M82	0.95882	0.378
2-1-1/M82	1.03835
2-1/M82	0.83085
2-6/M82	1.05509	0.695
3-2/M82	0.89366	1
4-1-1/M82	0.98641	1
4-1/M82	1.04157	1
4-3-2/M82	0.99311	1
4-3/M82	1.14975	1
5-3/M82	0.92985	0.642
6-2/M82	0.82225	0.444
6-3/M82	0.83318	0.68
7-1/M82	0.95244
7-2/M82	1.00199	1
9-3-2/M82	0.85526	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.76109	0.277
IL2-6/WTpooled	0.98856	1
IL7-5/WTpooled	1.15041	0.792
IL7-3/WTpooled	1.19535	1
IL12-4/WTpooled	1.2406	0.531
IL1-4/WTpooled	1.12875	1
WT/WTpooled	1.06764	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	1.10892	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06496	0.875
DC3000/delta hrp 6h	0.68042
DC3000/delta hrp 12h	1.33392	1
DC3000/delta hrp 24h	1.08105	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05094
DC3000 delta B/DC3000 delta AB	0.94001	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99512	1
Var 0h	1.05323	1
Var 12h I row2-row1	2.16746	0.473
Var 12h NI row2-row1	0.80516	0.627
Var 36h I row2-row1	0.82444	0.805
Var 36h NI row2-row1	0.87604	0.549
Var 60h I row2-row1	1.48196	0.562
Var 60h NI row2-row1	1.1793	0.904
Time course 0hI-0hNI	1.79555	0.63
Time course 12hI-12hNI	1.06905	0.738
Time course 36hI-36hNI	1.00219	0.742
Time course 60hI-60hNI	1.35758	0.033

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)	0.90601	0.529
transgenic ySAMdc/azygous control (breaker)	1.41825	0.172
transgenic ySAMdc/azygous control (red)	1.4181	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27401	0.105
Manapal/WT (break)	1.09535	1
Manapal/WT (red)	0.89078	0.424