Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.14.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.59865	0.162
27DAP/17DAP	0.62887	0.116
39DAP/27DAP	1.29997	0.384
41DAP/39DAP	0.55711	0.047
42DAP/41DAP	0.59018	0.774
43DAP/42DAP	1.18712	0.991
47DAP/43DAP	0.34707	0.048
52DAP/47DAP	1.40963	0.588
57DAP/52DAP	1.1669	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76734	0.067
17DAP/reference	0.81376	0.053
27DAP/reference	0.69808	0.018
39DAP/reference	0.68884	0.06
41DAP/reference	0.7346	0.039
42DAP/reference	0.73836	0.012
43DAP/reference	0.73709	0.135
47DAP/reference	0.55412	0.006
52DAP/reference	0.32908	0.014
57DAP/reference	0.59038	0.007

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3442	0.096
27DAP/17DAP	1.02195	1
39DAP/27DAP	0.78435	0.072
41DAP/39DAP	0.81994	0.384
42DAP/41DAP	0.71636	0.013
43DAP/42DAP	1.34079	0.049
47DAP/43DAP	0.72406	0.018
52DAP/47DAP	0.56586	0.034
57DAP/52DAP	1.38317	0.253
57DAP/7DAP	0.48965	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.84912	0.026
17DAP/reference	1.19901	0.016
27DAP/reference	0.86279	0.01
39DAP/reference	0.96436	0.307
41DAP/reference	0.88866	0.082
42DAP/reference	0.83073	0.01
43DAP/reference	0.82453	0.034
47DAP/reference	0.79918	0.222
52DAP/reference	0.75866	0.026
57DAP/reference	0.72183	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61549	0.022
17DAP/reference	1.14058	0.348
27DAP/reference	0.6608	0.022
39DAP/reference	0.6455	0.011
41DAP/reference	0.67574	0.009
42DAP/reference	0.7096	0.028
43DAP/reference	0.55825	0.002
47DAP/reference	0.58844	0.012
52DAP/reference	0.56127	0.004
57DAP/reference	0.57374	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4271	0.015
17DAP/reference	1.54698	0.096
27DAP/reference	1.2893	0.023
39DAP/reference	1.12269	0.318
41DAP/reference	0.85096	0.132
42DAP/reference	0.77309	0.041
43DAP/reference	0.72315	0.046
47DAP/reference	0.48584	0.004
52DAP/reference	0.58153	0.07
57DAP/reference	0.66302	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20132	0.966
26DAP/20DAP	0.95877	1
34DAP/26DAP	0.91431	0.653
51DAP/34DAP	0.39298	0.049
52DAP/51DAP	0.89096	1
53DAP/52DAP	0.74245	0.071
55DAP/53DAP	0.65234	0.052
57DAP/55DAP	0.92512	0.76
62DAP/57DAP	1.27808	0.115
68DAP/62DAP	0.6876	0.055
68DAP/14DAP	0.45847	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94805	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.79326	0.058
Mature Green Tomato/Ripe Tomato	15.4788	0.015
Immature Eggplant/Mature Eggplant	0.44814	0.062
Ripe Pepper/Ripe Tomato	6.12567	0.256
Mature Eggplant/Ripe Tomato	11.264	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.693
1-1-2/M82	1.3441	1
12-2/M82	2.08784
12-4/M82	0.34355	0.274
1-3/M82	4.9129
2-1-1/M82	0.25786
2-1/M82	0.40437
2-6/M82	2.26405	0.355
3-2/M82	N/A	N/A
4-1-1/M82	0.26797
4-1/M82	N/A	N/A
4-3-2/M82	3.20241
4-3/M82	1.07516	1
5-3/M82	1.01149	1
6-2/M82	N/A	N/A
6-3/M82	3.01788
7-1/M82	0.60944
7-2/M82	3.12331	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.2017	0.277
IL2-6/WTpooled	0.63774	0.348
IL7-5/WTpooled	1.09438	1
IL7-3/WTpooled	1.50468	0.362
IL12-4/WTpooled	1.12648	0.785
IL1-4/WTpooled	0.98158	0.834
WT/WTpooled	0.96407	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	1.06519	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93151	1
DC3000/delta hrp 6h	1.00721	0.95
DC3000/delta hrp 12h	0.79578	1
DC3000/delta hrp 24h	1.01536	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61971	0.029
DC3000 delta B/DC3000 delta AB	0.34845	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01696	1
Exp 36h	0.9498	0.879
Exp 60h	0.95133	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05559	1
Var 0h	0.52017	0.98
Var 12h I row2-row1	1.08831	0.443
Var 12h NI row2-row1	0.94645	0.327
Var 36h I row2-row1	1.0326	1
Var 36h NI row2-row1	0.9601	0.45
Var 60h I row2-row1	2.1733	0.562
Var 60h NI row2-row1	1.02619	0.904
Time course 0hI-0hNI	1.01741	0.852
Time course 12hI-12hNI	1.02818	0.798
Time course 36hI-36hNI	1.09847	0.316
Time course 60hI-60hNI	0.37503	0.015

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)	1.06261	0.699
transgenic ySAMdc/azygous control (breaker)	1.71845	0.248
transgenic ySAMdc/azygous control (red)	1.1368	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.50202	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.64121	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.76839	0.105
Manapal/WT (break)	3.0392	0.183
Manapal/WT (red)	1.22925	1