Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.3.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.37138	0.014
27DAP/17DAP	0.46114	0.038
39DAP/27DAP	0.76735	0.537
41DAP/39DAP	0.49781	0.042
42DAP/41DAP	0.7263	0.774
43DAP/42DAP	1.27122	0.88
47DAP/43DAP	1.03632	0.92
52DAP/47DAP	0.99112	0.873
57DAP/52DAP	0.79865	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3061	0.081
17DAP/reference	1.32912	0.041
27DAP/reference	1.43478	0.291
39DAP/reference	0.69991	0.01
41DAP/reference	0.63453	0.018
42DAP/reference	0.7258	0.009
43DAP/reference	0.4845
47DAP/reference	0.63247	0.002
52DAP/reference	0.6608	0.025
57DAP/reference	0.78493

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.30142	0.02
27DAP/17DAP	2.87989	0.02
39DAP/27DAP	0.41288	0.028
41DAP/39DAP	0.33624	0.013
42DAP/41DAP	1.05378	0.887
43DAP/42DAP	1.21258	0.324
47DAP/43DAP	0.77099	0.265
52DAP/47DAP	1.19277	0.609
57DAP/52DAP	1.1294	0.768
57DAP/7DAP	0.41551	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.05683	0.028
17DAP/reference	1.27136	0.123
27DAP/reference	0.99472	0.656
39DAP/reference	0.72486	0.031
41DAP/reference	0.84202	0.032
42DAP/reference	0.73855	0.034
43DAP/reference	0.63459	0.011
47DAP/reference	0.63061	0.033
52DAP/reference	0.57816	0.01
57DAP/reference	0.59595	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28874	0.36
17DAP/reference	1.4755	0.01
27DAP/reference	1.06058	0.81
39DAP/reference	0.82328	0.113
41DAP/reference	0.86661	0.029
42DAP/reference	0.93644	0.433
43DAP/reference	0.58412	0.003
47DAP/reference	0.63206	0.007
52DAP/reference	0.69342	0.007
57DAP/reference	0.67856	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.81012	0.015
17DAP/reference	1.49077	0.159
27DAP/reference	1.7246	0.013
39DAP/reference	0.86983	0.092
41DAP/reference	0.81247	0.03
42DAP/reference	0.7548	0.059
43DAP/reference	0.68611	0.023
47DAP/reference	0.5704	0.004
52DAP/reference	0.83631	0.303
57DAP/reference	1.08344	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97921	1
26DAP/20DAP	1.59945	0.197
34DAP/26DAP	0.87033	0.311
51DAP/34DAP	1.04536	0.719
52DAP/51DAP	0.99701	1
53DAP/52DAP	0.82828	0.365
55DAP/53DAP	0.81466	0.082
57DAP/55DAP	0.97136	0.872
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.97192	0.834
68DAP/14DAP	1.30627

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.10097	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.33174	0.063
Mature Green Tomato/Ripe Tomato	15.6159	0.015
Immature Eggplant/Mature Eggplant	0.39084	0.062
Ripe Pepper/Ripe Tomato	1796.35	1
Mature Eggplant/Ripe Tomato	100.371	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.42302
1-1-2/M82	0.85004
12-2/M82	N/A	N/A
12-4/M82	1.15788	0.694
1-3/M82	0.73864	0.501
2-1-1/M82	1.4479
2-1/M82	N/A	N/A
2-6/M82	1.18322	0.505
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.03437
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.98073	1
6-2/M82	0.88048
6-3/M82	1.16259
7-1/M82	N/A	N/A
7-2/M82	1.09573	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79153	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.55964
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.99557	1
IL1-4/WTpooled	1.14759	1
WT/WTpooled	1.40778

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	0.98982	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8963	1
DC3000/delta hrp 6h	1.07193	1
DC3000/delta hrp 12h	0.92641	1
DC3000/delta hrp 24h	0.64697	0.111

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.38609	0.023
DC3000 delta B/DC3000 delta AB	0.39738	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8561	0.328
Exp 36h	0.71847	0.449
Exp 60h	0.61599	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98225	1
Var 0h	1.15651	0.936
Var 12h I row2-row1	0.7873	0.338
Var 12h NI row2-row1	0.94034	0.627
Var 36h I row2-row1	1.08437	0.742
Var 36h NI row2-row1	1.33359	0.276
Var 60h I row2-row1	1.04551	1
Var 60h NI row2-row1	1.18949	0.904
Time course 0hI-0hNI	0.97814	0.934
Time course 12hI-12hNI	0.92118	0.42
Time course 36hI-36hNI	0.69617	0.023
Time course 60hI-60hNI	0.09779	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)	0.81739	0.428
transgenic ySAMdc/azygous control (breaker)	1.63622	1
transgenic ySAMdc/azygous control (red)	1.03893	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.63784	0.107

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	5.01091	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31323	0.14
Manapal/WT (break)	3.18731	0.381
Manapal/WT (red)	5.10926	0.164