Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.12.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88068	0.427
27DAP/17DAP	0.8319	0.575
39DAP/27DAP	1.02984	1
41DAP/39DAP	2.99499	0.478
42DAP/41DAP	1.11537	0.916
43DAP/42DAP	1.00284	0.93
47DAP/43DAP	0.86869	0.562
52DAP/47DAP	1.31964	0.518
57DAP/52DAP	0.90589	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01155	0.743
17DAP/reference	1.03791	0.874
27DAP/reference	1.02869	0.904
39DAP/reference	0.99796	0.797
41DAP/reference	1.06201	0.667
42DAP/reference	0.91813	0.202
43DAP/reference	0.84006	0.259
47DAP/reference	0.95987	0.445
52DAP/reference	0.97245	0.515
57DAP/reference	0.87585	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9262	0.47
27DAP/17DAP	0.98211	0.919
39DAP/27DAP	1.09851	0.611
41DAP/39DAP	0.97899	0.997
42DAP/41DAP	1.0363	0.999
43DAP/42DAP	1.08763	0.554
47DAP/43DAP	1.0545	0.827
52DAP/47DAP	1.01571	0.979
57DAP/52DAP	0.98221	0.793
57DAP/7DAP	1.19217	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77601	0.071
17DAP/reference	1.03858	1
27DAP/reference	0.89333	0.146
39DAP/reference	0.80373	0.015
41DAP/reference	0.96451	0.489
42DAP/reference	0.78826	0.048
43DAP/reference	0.94557	0.23
47DAP/reference	0.93967	0.671
52DAP/reference	1.09365	0.352
57DAP/reference	0.89208	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70828	0.022
17DAP/reference	1.20039	1
27DAP/reference	0.81313	0.269
39DAP/reference	0.81365	0.156
41DAP/reference	0.76658	0.064
42DAP/reference	1.0106	0.723
43DAP/reference	1.09952	0.939
47DAP/reference	1.08429	0.247
52DAP/reference	0.99933	1
57DAP/reference	1.10388	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01125	1
17DAP/reference	1.29128	0.084
27DAP/reference	0.89382	0.195
39DAP/reference	1.12182	0.264
41DAP/reference	1.15005	0.796
42DAP/reference	1.12426	0.775
43DAP/reference	0.92363	0.365
47DAP/reference	1.13979	0.405
52DAP/reference	1.04628	0.657
57DAP/reference	0.88075	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.70539	0.997
26DAP/20DAP	1.05474	0.826
34DAP/26DAP	0.97647	0.972
51DAP/34DAP	1.31671	0.053
52DAP/51DAP	0.68362	0.079
53DAP/52DAP	2.0009	0.028
55DAP/53DAP	1.01717	1
57DAP/55DAP	0.92291	0.658
62DAP/57DAP	0.53164	0.007
68DAP/62DAP	0.82994	0.7
68DAP/14DAP	1.80965	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61047	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.016	0.036
Mature Green Tomato/Ripe Tomato	1.32747	0.036
Immature Eggplant/Mature Eggplant	2.39841
Ripe Pepper/Ripe Tomato	480.751	0.258
Mature Eggplant/Ripe Tomato	3.96134

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.95913
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	0.72991
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	0.99384
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	1.02173

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.54053
IL2-6/WTpooled	0.72543	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85259	0.418
IL12-4/WTpooled	0.8307	0.71
IL1-4/WTpooled	1.1373	1
WT/WTpooled	0.99103	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	0.93269	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04992	0.921
DC3000/delta hrp 6h	0.42977	0.757
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.72269	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93406	0.841
DC3000 delta B/DC3000 delta AB	0.9882	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.41757	0.227
Exp 36h	0.70618	0.699
Exp 60h	0.966	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00644	1
Var 0h	1.03809	1
Var 12h I row2-row1	0.96051	0.77
Var 12h NI row2-row1	0.91027	0.713
Var 36h I row2-row1	1.02601	0.742
Var 36h NI row2-row1	1.12144	0.482
Var 60h I row2-row1	1.27349	0.562
Var 60h NI row2-row1	1.03105	0.904
Time course 0hI-0hNI	1.07904	0.413
Time course 12hI-12hNI	0.98461	0.836
Time course 36hI-36hNI	0.99502	0.718
Time course 60hI-60hNI	0.8673	0.047

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.60232	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6725	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.12386	1
Manapal/WT (red)	N/A	N/A