Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33661	0.148
27DAP/17DAP	1.30771	0.847
39DAP/27DAP	0.73532	0.435
41DAP/39DAP	1.19677	0.988
42DAP/41DAP	0.94051	1
43DAP/42DAP	1.06809	1
47DAP/43DAP	1.17982	0.727
52DAP/47DAP	1.18188	0.906
57DAP/52DAP	0.86362	0.882

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.24957	0.008
17DAP/reference	1.29547	0.096
27DAP/reference	1.44544	0.018
39DAP/reference	0.85514	0.114
41DAP/reference	0.83211	0.049
42DAP/reference	1.01854	1
43DAP/reference	0.56223	0.012
47DAP/reference	0.68535	0.001
52DAP/reference	0.78187	0.017
57DAP/reference	0.68368	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29071	0.094
27DAP/17DAP	1.05752	0.98
39DAP/27DAP	0.78448	0.073
41DAP/39DAP	0.93763	0.696
42DAP/41DAP	0.89212	0.262
43DAP/42DAP	1.03999	0.478
47DAP/43DAP	0.96674	0.843
52DAP/47DAP	0.96226	0.893
57DAP/52DAP	1.00129	0.869
57DAP/7DAP	1.63674	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01878	0.682
17DAP/reference	0.78473	0.014
27DAP/reference	0.92409	0.101
39DAP/reference	0.87819	0.039
41DAP/reference	1.05068	0.678
42DAP/reference	0.94242	0.248
43DAP/reference	0.77359	0.011
47DAP/reference	0.73604	0.04
52DAP/reference	0.83543	0.077
57DAP/reference	0.94826	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57176	0.201
17DAP/reference	1.57967	0.011
27DAP/reference	1.27325	0.225
39DAP/reference	0.74167	0.049
41DAP/reference	0.85336	0.087
42DAP/reference	1.22022	0.267
43DAP/reference	1.27563	0.532
47DAP/reference	0.83775	0.071
52DAP/reference	0.65973	0.004
57DAP/reference	0.63134	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9478	0.455
17DAP/reference	1.3508	0.253
27DAP/reference	1.03975	1
39DAP/reference	0.80672	0.022
41DAP/reference	0.96995	0.459
42DAP/reference	0.90177	0.22
43DAP/reference	0.83867	0.102
47DAP/reference	0.74249	0.028
52DAP/reference	0.82283	0.14
57DAP/reference	0.92304	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.54654	0.56
26DAP/20DAP	0.79691	0.512
34DAP/26DAP	0.98266	1
51DAP/34DAP	0.80772	0.264
52DAP/51DAP	0.93257	1
53DAP/52DAP	0.95866	0.803
55DAP/53DAP	1.26252	0.748
57DAP/55DAP	0.99534	0.923
62DAP/57DAP	1.08926	0.723
68DAP/62DAP	1.05646	0.95
68DAP/14DAP	0.39948

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04873	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.24222	0.058
Mature Green Tomato/Ripe Tomato	3.292	0.016
Immature Eggplant/Mature Eggplant	0.57139	0.069
Ripe Pepper/Ripe Tomato	8.2022	1
Mature Eggplant/Ripe Tomato	34.5451

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90029	1
IL2-6/WTpooled	0.94081
IL7-5/WTpooled	1.18595	0.67
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.11805	0.426
WT/WTpooled	0.87742

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	0.81087	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98658	1
DC3000/delta hrp 6h	1.12152	1
DC3000/delta hrp 12h	1.56749	1
DC3000/delta hrp 24h	0.56559	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	1.00726	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06195	1
Exp 36h	1.06693	0.693
Exp 60h	0.95324	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00807	1
Var 0h	0.98978	1
Var 12h I row2-row1	1.08686	0.224
Var 12h NI row2-row1	0.93145	0.627
Var 36h I row2-row1	0.59922	0.438
Var 36h NI row2-row1	1.39292	0.253
Var 60h I row2-row1	1.15321	0.562
Var 60h NI row2-row1	1.35854	0.691
Time course 0hI-0hNI	0.86157	0.126
Time course 12hI-12hNI	0.94968	0.637
Time course 36hI-36hNI	0.69938	0.023
Time course 60hI-60hNI	0.30472	0.006

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)	0.72297	0.32
transgenic ySAMdc/azygous control (breaker)	1.38725	1
transgenic ySAMdc/azygous control (red)	0.81431	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.6629	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.7039	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.73648	0.083
Manapal/WT (break)	1.23801	1
Manapal/WT (red)	2.54727	0.413