Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39134	0.615
27DAP/17DAP	1.05238	0.89
39DAP/27DAP	1.36726	0.501
41DAP/39DAP	2.1585	0.067
42DAP/41DAP	1.19528	0.73
43DAP/42DAP	1.21145	1
47DAP/43DAP	0.4208	0.049
52DAP/47DAP	0.71874	0.466
57DAP/52DAP	1.08912	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.30678	0.024
17DAP/reference	0.28209	0.007
27DAP/reference	0.33363	0.012
39DAP/reference	0.35432	0.011
41DAP/reference	0.41793	0.014
42DAP/reference	0.49577	0.001
43DAP/reference	0.44851	0.015
47DAP/reference	0.50221	0.001
52DAP/reference	0.44879	0.03
57DAP/reference	0.49391	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.83991	0.389
27DAP/17DAP	1.19315	0.817
39DAP/27DAP	0.92296	0.768
41DAP/39DAP	1.31706	0.19
42DAP/41DAP	0.7447	0.179
43DAP/42DAP	1.14869	0.746
47DAP/43DAP	1.17434	0.822
52DAP/47DAP	0.98163	0.899
57DAP/52DAP	1.085	0.926
57DAP/7DAP	2.94467	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.35759	0.039
17DAP/reference	0.44884	0.013
27DAP/reference	0.51914	0.01
39DAP/reference	0.50117	0.011
41DAP/reference	0.50545	0.012
42DAP/reference	0.4774	0.01
43DAP/reference	0.31341	0.009
47DAP/reference	0.38583	0.03
52DAP/reference	0.37832	0.009
57DAP/reference	0.32623	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.28116	0.004
17DAP/reference	0.30356	0.003
27DAP/reference	0.45231	0.01
39DAP/reference	0.43382	0.013
41DAP/reference	0.4689	0.081
42DAP/reference	0.55679	0.012
43DAP/reference	0.3709	0.002
47DAP/reference	0.68765	0.02
52DAP/reference	0.30991	0.003
57DAP/reference	0.53721	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.40428	0.022
17DAP/reference	0.72611	0.144
27DAP/reference	0.36096	0.025
39DAP/reference	0.53494	0.023
41DAP/reference	0.43087	0.019
42DAP/reference	0.63532	0.019
43DAP/reference	0.60776	0.017
47DAP/reference	0.48377	0.004
52DAP/reference	0.53507	0.064
57DAP/reference	0.73135	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96223	1
26DAP/20DAP	1.15801	0.744
34DAP/26DAP	1.34883	0.088
51DAP/34DAP	0.93511	0.703
52DAP/51DAP	1.23744	0.915
53DAP/52DAP	0.93574	0.844
55DAP/53DAP	0.86476	0.735
57DAP/55DAP	1.0617	0.935
62DAP/57DAP	0.98868	1
68DAP/62DAP	0.77565	0.29
68DAP/14DAP	0.87226	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.08398	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.85218
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	0.71605	0.616
1-1-2/M82	1.03343	1
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	5.99221
2-1-1/M82	0.43678
2-1/M82	N/A	N/A
2-6/M82	0.75818
3-2/M82	0.69868
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	0.9112
5-3/M82	1.74156	0.572
6-2/M82	4.20046
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.53298
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66896	0.247
IL2-6/WTpooled	1.01179	1
IL7-5/WTpooled	1.22531	0.792
IL7-3/WTpooled	0.79678	1
IL12-4/WTpooled	1.0808	0.891
IL1-4/WTpooled	0.92224	0.699
WT/WTpooled	0.9675	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	1.71402	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01026	1
DC3000/delta hrp 6h	1.01496	0.95
DC3000/delta hrp 12h	1.04392	1
DC3000/delta hrp 24h	0.87919	0.257

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92019	0.538
DC3000 delta B/DC3000 delta AB	1.21868	0.212

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25707	1
Exp 36h	1.62386	1
Exp 60h	1.25159	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07034	1
Var 0h	1.14642	0.98
Var 12h I row2-row1	0.94	0.77
Var 12h NI row2-row1	1.59124	0.649
Var 36h I row2-row1	1.38019	0.41
Var 36h NI row2-row1	0.55668	0.469
Var 60h I row2-row1	1.8039	0.543
Var 60h NI row2-row1	0.72262	0.458
Time course 0hI-0hNI	1.18096	0.799
Time course 12hI-12hNI	1.05509	0.892
Time course 36hI-36hNI	2.34715	0.005
Time course 60hI-60hNI	5.28193	0.011

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)	1.06347	0.482
transgenic ySAMdc/azygous control (breaker)	3.34644	0.248
transgenic ySAMdc/azygous control (red)	0.63289	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95015	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7478	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.05949	1
Manapal/WT (break)	1.2709	1
Manapal/WT (red)	0.12936	0.181