Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.5.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31779	0.443
27DAP/17DAP	0.9592	0.939
39DAP/27DAP	1.0656	0.899
41DAP/39DAP	1.2256	0.483
42DAP/41DAP	1.02447	1
43DAP/42DAP	1.10683	1
47DAP/43DAP	0.91176	0.696
52DAP/47DAP	1.27918	0.718
57DAP/52DAP	0.95404	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04376	0.96
17DAP/reference	0.85016	0.12
27DAP/reference	0.97305	0.654
39DAP/reference	0.91737	0.306
41DAP/reference	0.77939	0.013
42DAP/reference	0.91602	0.151
43DAP/reference	1.17474	0.126
47DAP/reference	1.20475	0.119
52DAP/reference	0.99843	0.709
57DAP/reference	0.98606	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86405	0.442
27DAP/17DAP	0.78854	0.295
39DAP/27DAP	0.79719	0.156
41DAP/39DAP	1.22038	0.773
42DAP/41DAP	1.15446	0.446
43DAP/42DAP	1.15394	0.382
47DAP/43DAP	0.9242	0.687
52DAP/47DAP	1.14526	0.831
57DAP/52DAP	0.95329	0.697
57DAP/7DAP	0.59485	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87716	0.073
17DAP/reference	1.09332	0.688
27DAP/reference	1.01235	0.748
39DAP/reference	1.0854	0.634
41DAP/reference	0.78803	0.213
42DAP/reference	0.89838	0.169
43DAP/reference	0.80911	0.1
47DAP/reference	0.89996	0.293
52DAP/reference	1.1347	0.491
57DAP/reference	0.9371	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75033	0.023
17DAP/reference	0.97129	0.548
27DAP/reference	1.09343	0.988
39DAP/reference	0.94869	0.416
41DAP/reference	0.99635	0.584
42DAP/reference	0.96391	0.433
43DAP/reference	1.01563	0.561
47DAP/reference	0.8186	0.075
52DAP/reference	1.02195	1
57DAP/reference	0.67928	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89236	0.268
17DAP/reference	0.93747	0.477
27DAP/reference	0.98574	0.657
39DAP/reference	0.93484	0.222
41DAP/reference	0.92719	0.331
42DAP/reference	1.1556	0.4
43DAP/reference	1.19085	0.388
47DAP/reference	0.96175	0.421
52DAP/reference	0.88577	0.327
57DAP/reference	1.34326	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33833	0.966
26DAP/20DAP	1.0618	1
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.36195	0.962
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.79218	0.587
55DAP/53DAP	1.34389	0.375
57DAP/55DAP	0.8408	0.516
62DAP/57DAP	0.97249
68DAP/62DAP	1.45306	0.193
68DAP/14DAP	1.49645	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05155	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74749	0.213
Mature Green Tomato/Ripe Tomato	1.53807	0.095
Immature Eggplant/Mature Eggplant	0.73801	0.067
Ripe Pepper/Ripe Tomato	1.36361	1
Mature Eggplant/Ripe Tomato	1.03652

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.08819	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	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	0.83498
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.85609	0.425
7-2/M82	N/A	N/A
9-3-2/M82	1.51724	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71564	0.243
IL2-6/WTpooled	0.93862	0.473
IL7-5/WTpooled	1.39793	0.792
IL7-3/WTpooled	0.98433	1
IL12-4/WTpooled	1.04253	0.891
IL1-4/WTpooled	0.85205	0.415
WT/WTpooled	0.9122	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	0.77582	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.69826	0.921
DC3000/delta hrp 6h	0.88648	1
DC3000/delta hrp 12h	1.10723
DC3000/delta hrp 24h	1.01311	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72529	0.196
DC3000 delta B/DC3000 delta AB	0.50095	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22005	1
Exp 36h	1.50964	1
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	0.99469	1
Var 0h	0.51856	1
Var 12h I row2-row1	0.77647	0.514
Var 12h NI row2-row1	0.94161	0.82
Var 36h I row2-row1	0.85411	0.575
Var 36h NI row2-row1	1.34161	1
Var 60h I row2-row1	1.60417	0.562
Var 60h NI row2-row1	1.29747	0.904
Time course 0hI-0hNI	1.00229	1
Time course 12hI-12hNI	0.92834	0.446
Time course 36hI-36hNI	0.77299	0.041
Time course 60hI-60hNI	0.14206	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)	0.93366	0.314
transgenic ySAMdc/azygous control (breaker)	0.71876	0.122
transgenic ySAMdc/azygous control (red)	1.07568	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00114	0.967

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)	0.93259	1
Manapal/WT (break)	0.88238	0.333
Manapal/WT (red)	N/A	N/A