Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90283	0.503
27DAP/17DAP	0.77304	0.475
39DAP/27DAP	1.08618	0.893
41DAP/39DAP	1.28838	0.85
42DAP/41DAP	0.78129	1
43DAP/42DAP	1.10142	1
47DAP/43DAP	0.93155	0.66
52DAP/47DAP	1.06382	0.875
57DAP/52DAP	1.02254	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09536	1
17DAP/reference	1.02186	0.764
27DAP/reference	1.04277	0.996
39DAP/reference	1.37802	0.083
41DAP/reference	1.15111	0.48
42DAP/reference	0.99794	0.587
43DAP/reference	0.98892	0.805
47DAP/reference	1.26614	0.612
52DAP/reference	1.47637	0.176
57DAP/reference	1.20473	0.229

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13957	0.473
27DAP/17DAP	1.24388	0.246
39DAP/27DAP	0.91594	0.394
41DAP/39DAP	1.06701	0.719
42DAP/41DAP	1.10309	0.936
43DAP/42DAP	1.22732	0.079
47DAP/43DAP	1.04431	0.601
52DAP/47DAP	1.16402	0.603
57DAP/52DAP	1.17742	0.539
57DAP/7DAP	1.03182	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87397	0.157
17DAP/reference	0.91872	0.389
27DAP/reference	1.1544	0.301
39DAP/reference	0.69151	0.012
41DAP/reference	0.78205	0.07
42DAP/reference	0.82413	0.09
43DAP/reference	0.85685	0.121
47DAP/reference	1.38083	0.822
52DAP/reference	0.86706	0.179
57DAP/reference	0.89335	0.123

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04352	0.758
17DAP/reference	0.86846	0.474
27DAP/reference	1.02719	1
39DAP/reference	0.88648	0.33
41DAP/reference	1.1793	0.846
42DAP/reference	1.23494	0.744
43DAP/reference	1.24932	0.633
47DAP/reference	1.026	0.994
52DAP/reference	1.08432	1
57DAP/reference	0.73912	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09445	0.386
17DAP/reference	0.93886	0.47
27DAP/reference	0.97215	0.594
39DAP/reference	0.8433	0.026
41DAP/reference	1.02725	0.826
42DAP/reference	1.04075	0.863
43DAP/reference	1.0018	0.858
47DAP/reference	0.88067	0.069
52DAP/reference	1.04027	0.946
57DAP/reference	0.79872	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.5898
26DAP/20DAP	1.11592	0.642
34DAP/26DAP	1.30017	0.819
51DAP/34DAP	1.03647	0.967
52DAP/51DAP	1.01521	1
53DAP/52DAP	0.87225	0.307
55DAP/53DAP	0.88226	0.037
57DAP/55DAP	0.79843	0.486
62DAP/57DAP	0.97109	0.994
68DAP/62DAP	0.96535	0.81
68DAP/14DAP	1.25667

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18063	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	4.16512
IL2-6/WTpooled	1.08371	1
IL7-5/WTpooled	0.30528
IL7-3/WTpooled	0.87949	1
IL12-4/WTpooled	1.1845	0.673
IL1-4/WTpooled	1.19204	0.426
WT/WTpooled	1.07027	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	0.83253	0.197

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22299	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.60296	0.044

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	N/A	N/A

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	0.94552	1
Var 0h	1.10497	0.98
Var 12h I row2-row1	0.91189	0.338
Var 12h NI row2-row1	1.02288	1
Var 36h I row2-row1	0.94617	0.805
Var 36h NI row2-row1	0.89709	0.743
Var 60h I row2-row1	0.92246
Var 60h NI row2-row1	1.16936	0.904
Time course 0hI-0hNI	0.89571	0.225
Time course 12hI-12hNI	0.98253	0.86
Time course 36hI-36hNI	0.85823	0.082
Time course 60hI-60hNI	0.76277	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)	0.61864	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23657	0.229

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)	1.30162	1
Manapal/WT (red)	N/A	N/A