Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.8.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76907	0.141
27DAP/17DAP	1.14296	0.833
39DAP/27DAP	0.95188	0.682
41DAP/39DAP	1.15609	0.833
42DAP/41DAP	1.34933	0.66
43DAP/42DAP	1.04313	1
47DAP/43DAP	1.25976	0.727
52DAP/47DAP	1.1714	0.89
57DAP/52DAP	1.31058	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71562	0.026
17DAP/reference	0.8325	0.065
27DAP/reference	0.87342	0.215
39DAP/reference	0.93295	0.267
41DAP/reference	0.78299	0.018
42DAP/reference	0.75237	0.012
43DAP/reference	0.90751	0.2
47DAP/reference	0.90733	0.06
52DAP/reference	0.95105	0.382
57DAP/reference	1.09325	0.564

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90723	0.454
27DAP/17DAP	1.17083	0.476
39DAP/27DAP	1.10817	0.654
41DAP/39DAP	0.9494	0.923
42DAP/41DAP	1.02857	1
43DAP/42DAP	1.22809	0.324
47DAP/43DAP	1.04304	0.926
52DAP/47DAP	1.10238	0.862
57DAP/52DAP	0.96368	0.673
57DAP/7DAP	1.52456	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08028	0.534
17DAP/reference	1.113	0.599
27DAP/reference	1.25291	0.013
39DAP/reference	1.14024	0.669
41DAP/reference	1.1204	0.46
42DAP/reference	1.17348	0.132
43DAP/reference	1.0197	1
47DAP/reference	0.89409	0.293
52DAP/reference	0.87333	0.061
57DAP/reference	0.84105	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91253	0.342
17DAP/reference	0.64836	0.113
27DAP/reference	0.87801	0.249
39DAP/reference	0.86737	0.018
41DAP/reference	0.98023	0.505
42DAP/reference	0.89902	0.212
43DAP/reference	1.08208	0.929
47DAP/reference	0.91556	0.083
52DAP/reference	0.81924	0.203
57DAP/reference	0.73783	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07535	0.287
17DAP/reference	0.92838	0.452
27DAP/reference	0.94052	0.376
39DAP/reference	0.91826	0.083
41DAP/reference	0.98098	0.682
42DAP/reference	0.96219	0.552
43DAP/reference	0.94392	0.432
47DAP/reference	1.01659	1
52DAP/reference	1.53713	0.295
57DAP/reference	1.04047	0.8

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09938	0.966
26DAP/20DAP	0.97561	1
34DAP/26DAP	1.5002
51DAP/34DAP	0.88404	0.498
52DAP/51DAP	1.01719	0.939
53DAP/52DAP	1.13465	0.489
55DAP/53DAP	0.9423	0.686
57DAP/55DAP	0.91993	0.691
62DAP/57DAP	1.50161	0.257
68DAP/62DAP	1.76348	0.31
68DAP/14DAP	1.66223	0.108

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1367	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.05642
Mature Green Tomato/Ripe Tomato	1.27436	0.577
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.77315
Mature Eggplant/Ripe Tomato	0.74375	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.78413
1-1-2/M82	0.95601	1
12-2/M82	0.82011
12-4/M82	1.03357	1
1-3/M82	1.2009
2-1-1/M82	0.68722	0.465
2-1/M82	N/A	N/A
2-6/M82	1.09404
3-2/M82	N/A	N/A
4-1-1/M82	0.85585	1
4-1/M82	1.8367	1
4-3-2/M82	0.58328	0.487
4-3/M82	0.43786	0.551
5-3/M82	1.0544	1
6-2/M82	0.88176	1
6-3/M82	1.07602	1
7-1/M82	1.37283
7-2/M82	0.88668	0.796
9-3-2/M82	1.9451	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06499	1
IL2-6/WTpooled	1.01379	1
IL7-5/WTpooled	1.28297	0.75
IL7-3/WTpooled	1.14925	0.362
IL12-4/WTpooled	0.836	0.71
IL1-4/WTpooled	1.02583	0.426
WT/WTpooled	0.77536	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	0.82746	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98751	1
DC3000/delta hrp 6h	1.09539	1
DC3000/delta hrp 12h	1.04737	1
DC3000/delta hrp 24h	0.69691	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	3.115	0.363

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99912	1
Exp 36h	N/A	N/A
Exp 60h	0.7733	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09974	1
Var 0h	0.941	1
Var 12h I row2-row1	1.05429	0.406
Var 12h NI row2-row1	0.84903	0.488
Var 36h I row2-row1	0.74136	0.805
Var 36h NI row2-row1	1.55098	0.482
Var 60h I row2-row1	1.15286	0.523
Var 60h NI row2-row1	1.0548	0.904
Time course 0hI-0hNI	1.06395	0.799
Time course 12hI-12hNI	0.90296	0.173
Time course 36hI-36hNI	0.76482	0.023
Time course 60hI-60hNI	0.57038	0.026

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)	1.0749	0.863
transgenic ySAMdc/azygous control (breaker)	1.02343	1
transgenic ySAMdc/azygous control (red)	1.33411	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02983	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88346	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.746	1
Manapal/WT (break)	1.02151	1
Manapal/WT (red)	1.10672	1