Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.14.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16476	0.414
27DAP/17DAP	1.0026	1
39DAP/27DAP	0.88304	0.462
41DAP/39DAP	1.20377	0.349
42DAP/41DAP	1.06028	0.954
43DAP/42DAP	0.88509	0.705
47DAP/43DAP	1.17466	0.459
52DAP/47DAP	0.76971	0.341
57DAP/52DAP	0.98696	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37572	0.013
17DAP/reference	1.18876	0.014
27DAP/reference	1.16477	0.039
39DAP/reference	1.1595	0.301
41DAP/reference	1.4613	0.014
42DAP/reference	1.48814	0.001
43DAP/reference	1.15227	0.34
47DAP/reference	1.33006	0.001
52DAP/reference	1.55131	0.012
57DAP/reference	1.31446	0.084

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01268	0.961
27DAP/17DAP	0.95474	0.614
39DAP/27DAP	1.0204	0.751
41DAP/39DAP	1.12226	0.748
42DAP/41DAP	0.95742	0.666
43DAP/42DAP	1.00531	0.83
47DAP/43DAP	1.02775	0.92
52DAP/47DAP	1.01269	0.965
57DAP/52DAP	1.00011	0.921
57DAP/7DAP	1.00604	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88953	0.224
17DAP/reference	0.83987	0.019
27DAP/reference	0.83215	0.028
39DAP/reference	0.79388	0.011
41DAP/reference	0.84664	0.042
42DAP/reference	0.71984	0.01
43DAP/reference	0.69503	0.011
47DAP/reference	0.94886	0.504
52DAP/reference	0.75635	0.015
57DAP/reference	0.77453	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31091	0.269
17DAP/reference	1.63146	0.02
27DAP/reference	1.79533	0.019
39DAP/reference	1.42613	0.093
41DAP/reference	1.7055	0.006
42DAP/reference	1.69665	0.008
43DAP/reference	1.54268	0.052
47DAP/reference	1.35705	0.008
52DAP/reference	1.67954	0.006
57DAP/reference	1.56133	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77191	0.046
17DAP/reference	1.1633	0.42
27DAP/reference	0.82002	0.031
39DAP/reference	0.89593	0.222
41DAP/reference	0.97025	0.56
42DAP/reference	1.04833	0.816
43DAP/reference	1.18528	0.452
47DAP/reference	1.20451	0.077
52DAP/reference	0.86012	0.342
57DAP/reference	1.11625	0.354

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85388	0.961
26DAP/20DAP	0.94969	1
34DAP/26DAP	1.09226	0.304
51DAP/34DAP	0.95147	0.606
52DAP/51DAP	0.96317	1
53DAP/52DAP	1.03453	0.845
55DAP/53DAP	1.05073	0.976
57DAP/55DAP	0.97609	0.855
62DAP/57DAP	0.95767	0.994
68DAP/62DAP	0.75059	0.245
68DAP/14DAP	0.51089	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75843	0.05

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2686	1
Mature Green Tomato/Ripe Tomato	1.12397	0.399
Immature Eggplant/Mature Eggplant	1.31153	0.081
Ripe Pepper/Ripe Tomato	4.19426	1
Mature Eggplant/Ripe Tomato	3.93995	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88165	0.69
1-1-2/M82	1.07542
12-2/M82	N/A	N/A
12-4/M82	1.04276	1
1-3/M82	0.86478	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.15849
2-6/M82	1.12508	0.695
3-2/M82	1.18801	0.84
4-1-1/M82	1.12511	1
4-1/M82	1.04396	0.853
4-3-2/M82	0.83187	0.487
4-3/M82	0.87249	0.72
5-3/M82	1.06013	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86757
7-2/M82	0.91147	0.57
9-3-2/M82	0.88877	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.27908	0.522
IL1-4/WTpooled	0.97039	1
WT/WTpooled	1.02973	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	1.08474	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03148	0.921
DC3000/delta hrp 6h	1.00468	0.95
DC3000/delta hrp 12h	1.17239	1
DC3000/delta hrp 24h	1.08268	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.59953	0.024
DC3000 delta B/DC3000 delta AB	0.55079	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26927	1
Exp 36h	0.82433	0.82
Exp 60h	0.83939	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98622	1
Var 0h	0.51509	1
Var 12h I row2-row1	0.72794	0.338
Var 12h NI row2-row1	1.10792	1
Var 36h I row2-row1	1.18735	1
Var 36h NI row2-row1	1.12167	0.482
Var 60h I row2-row1	1.28925	0.543
Var 60h NI row2-row1	1.03527	1
Time course 0hI-0hNI	0.97951	0.936
Time course 12hI-12hNI	1.00958	0.867
Time course 36hI-36hNI	0.94482	0.144
Time course 60hI-60hNI	0.23296	0.005

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)	1.46049	0.248
transgenic ySAMdc/azygous control (red)	1.137	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85781	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.48895	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99991	1
Manapal/WT (break)	1.24051	0.381
Manapal/WT (red)	1.17102	1