Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.13.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97913	0.811
27DAP/17DAP	1.10296	0.881
39DAP/27DAP	1.21477	0.75
41DAP/39DAP	1.09712	0.432
42DAP/41DAP	0.91645	1
43DAP/42DAP	1.05459	1
47DAP/43DAP	1.04226	0.979
52DAP/47DAP	1.05377	0.927
57DAP/52DAP	0.99863	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94255	0.217
17DAP/reference	1.00742	0.696
27DAP/reference	0.99523	0.822
39DAP/reference	1.02312	0.786
41DAP/reference	1.0268	0.587
42DAP/reference	0.94124	0.01
43DAP/reference	1.00081	1
47DAP/reference	0.95026	0.09
52DAP/reference	0.97406	0.405
57DAP/reference	1.07877	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02341	0.826
27DAP/17DAP	1.0038	1
39DAP/27DAP	0.97994	0.747
41DAP/39DAP	1.0196	0.817
42DAP/41DAP	1.01185	0.961
43DAP/42DAP	1.0183	0.627
47DAP/43DAP	1.00097	1
52DAP/47DAP	0.94189	0.498
57DAP/52DAP	0.9751	0.466
57DAP/7DAP	0.99593	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4731	0.048
17DAP/reference	1.85033	0.007
27DAP/reference	1.80886	0.008
39DAP/reference	2.02944	0.005
41DAP/reference	2.03558	0.012
42DAP/reference	2.15668	0.01
43DAP/reference	2.82835	0.006
47DAP/reference	1.4942	0.247
52DAP/reference	1.97182	0.007
57DAP/reference	1.72981	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93448	0.197
17DAP/reference	0.90635	0.026
27DAP/reference	0.91358	0.079
39DAP/reference	0.91601	0.043
41DAP/reference	0.89975	0.1
42DAP/reference	1.02653	0.951
43DAP/reference	0.88251	0.229
47DAP/reference	1.06784	0.182
52DAP/reference	0.90064	0.007
57DAP/reference	0.97543	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43726	0.022
17DAP/reference	1.36841	0.159
27DAP/reference	2.31158	0.02
39DAP/reference	2.13629	0.009
41DAP/reference	1.71066	0.012
42DAP/reference	1.60464	0.036
43DAP/reference	1.80354	0.049
47DAP/reference	0.97092	0.325
52DAP/reference	2.50534	0.039
57DAP/reference	1.36434	0.625

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02217	0.966
26DAP/20DAP	0.98477
34DAP/26DAP	1.00124	1
51DAP/34DAP	1.02141	0.775
52DAP/51DAP	1.04283	0.708
53DAP/52DAP	0.99854	1
55DAP/53DAP	0.99084	0.886
57DAP/55DAP	0.95327
62DAP/57DAP	0.98576	1
68DAP/62DAP	0.98858	0.885
68DAP/14DAP	1.25496	0.084

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94029	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94548	0.692
Mature Green Tomato/Ripe Tomato	1.12042	0.814
Immature Eggplant/Mature Eggplant	1.17609	0.062
Ripe Pepper/Ripe Tomato	0.58527	0.293
Mature Eggplant/Ripe Tomato	0.99738	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01044	1
1-1-2/M82	1.05172	1
12-2/M82	0.94055	0.955
12-4/M82	0.94675	0.619
1-3/M82	0.97026	0.378
2-1-1/M82	1.02664	0.764
2-1/M82	1.17633	1
2-6/M82	0.96668	1
3-2/M82	1.02494	0.967
4-1-1/M82	0.98836	1
4-1/M82	0.95444	1
4-3-2/M82	0.98062	1
4-3/M82	0.90523	0.72
5-3/M82	1.03978	1
6-2/M82	1.01439	1
6-3/M82	1.05536	1
7-1/M82	0.98502	1
7-2/M82	0.96821	1
9-3-2/M82	0.82762	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09344	0.531
IL7-5/WTpooled	1.08361	1
IL7-3/WTpooled	0.87381	0.418
IL12-4/WTpooled	0.96743	1
IL1-4/WTpooled	1.55156	1
WT/WTpooled	0.98342	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	1.1044	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96781
DC3000/delta hrp 6h	1.28246	1
DC3000/delta hrp 12h	0.95109
DC3000/delta hrp 24h	1.11883	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18139	0.042
DC3000 delta B/DC3000 delta AB	1.15166	0.324

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9608	1
Var 0h	0.78755	0.98
Var 12h I row2-row1	1.87238	0.379
Var 12h NI row2-row1	1.04024	1
Var 36h I row2-row1	0.95199	1
Var 36h NI row2-row1	0.92613	0.61
Var 60h I row2-row1	1.45608	1
Var 60h NI row2-row1	1.07624	0.904
Time course 0hI-0hNI	1.02883	1
Time course 12hI-12hNI	1.11001	0.385
Time course 36hI-36hNI	0.97063	0.36
Time course 60hI-60hNI	1.5169	0.008

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)	0.96597	0.662
transgenic ySAMdc/azygous control (breaker)	1.18548	1
transgenic ySAMdc/azygous control (red)	1.17878	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97139	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05512	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.33106	0.096
Manapal/WT (break)	1.30666	1
Manapal/WT (red)	1.64111	0.137