Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0157	0.997
27DAP/17DAP	0.86925	0.658
39DAP/27DAP	0.89407	0.537
41DAP/39DAP	1.66547	0.212
42DAP/41DAP	1.22214	0.813
43DAP/42DAP	0.88936	0.671
47DAP/43DAP	1.20442	0.349
52DAP/47DAP	0.7753	0.341
57DAP/52DAP	1.0303	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.97927	0.006
17DAP/reference	1.1249	0.787
27DAP/reference	0.66366	0.011
39DAP/reference	0.70372	0.024
41DAP/reference	0.83493	0.154
42DAP/reference	1.46844	0.001
43DAP/reference	0.8508	0.054
47DAP/reference	0.95401	0.3
52DAP/reference	0.65778	0.016
57DAP/reference	0.67834	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12092	0.379
27DAP/17DAP	0.94087	0.684
39DAP/27DAP	0.87104	0.159
41DAP/39DAP	1.00928	1
42DAP/41DAP	1.01133	0.924
43DAP/42DAP	0.91656	0.224
47DAP/43DAP	0.97493	0.902
52DAP/47DAP	1.05068	0.819
57DAP/52DAP	1.12652	0.455
57DAP/7DAP	0.75419	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88801	0.27
17DAP/reference	0.89934	0.056
27DAP/reference	0.84168	0.013
39DAP/reference	0.93617	0.23
41DAP/reference	0.99435	0.677
42DAP/reference	1.09518	0.686
43DAP/reference	0.88286	0.202
47DAP/reference	1.04567	0.804
52DAP/reference	0.85094	0.15
57DAP/reference	0.8537	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74171	0.206
17DAP/reference	2.46981	0.007
27DAP/reference	2.08114	0.05
39DAP/reference	1.28012	0.255
41DAP/reference	1.99595	0.007
42DAP/reference	2.21987	0.008
43DAP/reference	1.4668	0.164
47DAP/reference	1.40019	0.018
52DAP/reference	0.89015	0.086
57DAP/reference	0.97299	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93837	0.391
17DAP/reference	1.37613	0.496
27DAP/reference	0.75799	0.036
39DAP/reference	0.83794	0.043
41DAP/reference	0.90945	0.293
42DAP/reference	1.33258	0.443
43DAP/reference	1.29477	0.949
47DAP/reference	0.66692	0.008
52DAP/reference	0.84565	0.14
57DAP/reference	1.18941	0.648

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83908	1
26DAP/20DAP	1.03639	1
34DAP/26DAP	1.26801	0.819
51DAP/34DAP	0.81697	0.24
52DAP/51DAP	1.20925	0.186
53DAP/52DAP	1.11899	0.697
55DAP/53DAP	1.21497	0.167
57DAP/55DAP	0.99601	0.804
62DAP/57DAP	1.10373	0.8
68DAP/62DAP	0.98994	0.914
68DAP/14DAP	0.81225	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99478	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91468	0.491
Mature Green Tomato/Ripe Tomato	1.52053	0.095
Immature Eggplant/Mature Eggplant	1.03044	0.633
Ripe Pepper/Ripe Tomato	0.99291	1
Mature Eggplant/Ripe Tomato	1.60416

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89037
1-1-2/M82	0.76748	0.801
12-2/M82	N/A	N/A
12-4/M82	0.88335
1-3/M82	0.88328
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14171	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.09636	1
4-1/M82	0.91457
4-3-2/M82	0.97387	1
4-3/M82	0.71865
5-3/M82	1.02898	1
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	0.82228	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.42182	0.277
IL2-6/WTpooled	0.71447	0.473
IL7-5/WTpooled	0.71314	1
IL7-3/WTpooled	1.18541	1
IL12-4/WTpooled	1.06854	0.695
IL1-4/WTpooled	1.21031	1
WT/WTpooled	0.97345	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	0.9627	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96094	1
DC3000/delta hrp 6h	1.20809	1
DC3000/delta hrp 12h	1.97092	1
DC3000/delta hrp 24h	0.97003	0.769

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95529	0.691
DC3000 delta B/DC3000 delta AB	0.75621	0.04

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18201	1
Exp 36h	1.05549	1
Exp 60h	1.35403	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9848	1
Var 0h	0.57021	0.933
Var 12h I row2-row1	0.84736	0.338
Var 12h NI row2-row1	1.03802	1
Var 36h I row2-row1	0.99737	1
Var 36h NI row2-row1	1.11927	0.276
Var 60h I row2-row1	1.10928	0.562
Var 60h NI row2-row1	1.01086	1
Time course 0hI-0hNI	0.99303	1
Time course 12hI-12hNI	0.94843	0.637
Time course 36hI-36hNI	0.92479	0.067
Time course 60hI-60hNI	0.48421	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)	1.07502	0.455
transgenic ySAMdc/azygous control (breaker)	1.23084	0.248
transgenic ySAMdc/azygous control (red)	1.14963	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07552	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86862	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26182	0.105
Manapal/WT (break)	0.87584	1
Manapal/WT (red)	0.92387	0.728