Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.14.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26542	0.561
27DAP/17DAP	0.82923	0.577
39DAP/27DAP	0.82723	0.537
41DAP/39DAP	1.13323	0.483
42DAP/41DAP	1.24837	0.66
43DAP/42DAP	1.17675	0.799
47DAP/43DAP	1.31123	0.355
52DAP/47DAP	1.17109	0.769
57DAP/52DAP	1.12357	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99552	0.707
17DAP/reference	1.15045	0.025
27DAP/reference	1.11573	0.071
39DAP/reference	1.08822	0.277
41DAP/reference	1.2018	0.015
42DAP/reference	1.00419	0.731
43DAP/reference	1.1004	0.074
47DAP/reference	1.00517	0.764
52DAP/reference	0.91664	0.3
57DAP/reference	0.84593	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09475	0.264
27DAP/17DAP	0.95462	0.854
39DAP/27DAP	1.01256	0.799
41DAP/39DAP	0.92005	0.713
42DAP/41DAP	1.23368	0.021
43DAP/42DAP	1.6088	0.016
47DAP/43DAP	0.98401	0.93
52DAP/47DAP	1.03147	0.965
57DAP/52DAP	1.02185	0.997
57DAP/7DAP	1.04272	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85218	0.183
17DAP/reference	0.79577	0.011
27DAP/reference	0.76621	0.01
39DAP/reference	0.86753	0.027
41DAP/reference	0.82885	0.018
42DAP/reference	0.7733	0.01
43DAP/reference	0.85239	0.031
47DAP/reference	0.95191	0.504
52DAP/reference	0.88505	0.077
57DAP/reference	0.85846	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05431	0.695
17DAP/reference	1.03457	0.874
27DAP/reference	0.89896	0.249
39DAP/reference	0.90226	0.183
41DAP/reference	0.84598	0.051
42DAP/reference	0.89687	0.121
43DAP/reference	1.08738	0.479
47DAP/reference	1.04302	0.087
52DAP/reference	0.88897	0.012
57DAP/reference	1.03645	0.93

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88139	0.055
17DAP/reference	0.88518	0.073
27DAP/reference	0.78101	0.038
39DAP/reference	0.74951	0.018
41DAP/reference	0.82732	0.064
42DAP/reference	0.64612	0.016
43DAP/reference	0.77324	0.047
47DAP/reference	0.92575	0.249
52DAP/reference	0.72594	0.134
57DAP/reference	0.7193	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18886	0.966
26DAP/20DAP	1.03812	1
34DAP/26DAP	1.05311	1
51DAP/34DAP	0.90368	0.402
52DAP/51DAP	0.92853	1
53DAP/52DAP	1.18736	0.25
55DAP/53DAP	1.0024	0.951
57DAP/55DAP	0.88732	0.475
62DAP/57DAP	0.93487	0.871
68DAP/62DAP	0.83084	0.505
68DAP/14DAP	1.01949	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99904	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06091	0.666
Mature Green Tomato/Ripe Tomato	0.22961	0.017
Immature Eggplant/Mature Eggplant	1.0742	0.321
Ripe Pepper/Ripe Tomato	1.02472
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.2662
12-2/M82	N/A	N/A
12-4/M82	1.79836
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	1.43241	0.401
4-3-2/M82	0.84242	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.42981	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68494	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.13732	0.792
IL7-3/WTpooled	0.99431	1
IL12-4/WTpooled	0.99737	1
IL1-4/WTpooled	1.02994	1
WT/WTpooled	0.95912	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	1.01487	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.93429	0.95
DC3000/delta hrp 12h	1.0298	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73975
DC3000 delta B/DC3000 delta AB	0.52739	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06434	1
Exp 36h	0.98291	1
Exp 60h	1.33858	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97218	1
Var 0h	0.64598	1
Var 12h I row2-row1	0.95468	0.565
Var 12h NI row2-row1	0.9778	0.82
Var 36h I row2-row1	0.96108	1
Var 36h NI row2-row1	1.07636	1
Var 60h I row2-row1	1.229	0.562
Var 60h NI row2-row1	0.94452	1
Time course 0hI-0hNI	1.0263	0.603
Time course 12hI-12hNI	1.00838	0.833
Time course 36hI-36hNI	0.98377	0.559
Time course 60hI-60hNI	0.56626	0.007

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)	0.7842	0.315
transgenic ySAMdc/azygous control (breaker)	0.77319	0.142
transgenic ySAMdc/azygous control (red)	1.0297	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96035	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18455	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05682	1
Manapal/WT (break)	1.07613	1
Manapal/WT (red)	N/A	N/A