Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21352	0.615
27DAP/17DAP	0.95281	0.984
39DAP/27DAP	0.86838	0.549
41DAP/39DAP	1.35291	0.619
42DAP/41DAP	1.09838	0.992
43DAP/42DAP	1.08031	1
47DAP/43DAP	0.93336	0.68
52DAP/47DAP	1.44764	0.549
57DAP/52DAP	0.87519	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92093	0.284
17DAP/reference	1.0645	0.016
27DAP/reference	1.01372	0.66
39DAP/reference	1.11062	0.079
41DAP/reference	1.08705	0.393
42DAP/reference	0.88938	0.033
43DAP/reference	1.04603	0.617
47DAP/reference	0.9423	0.148
52DAP/reference	0.84092	0.135
57DAP/reference	0.77049	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91137	0.454
27DAP/17DAP	0.89265	0.648
39DAP/27DAP	0.85528	0.126
41DAP/39DAP	1.14114	0.514
42DAP/41DAP	1.33538	0.007
43DAP/42DAP	1.09683	0.446
47DAP/43DAP	0.91594	0.373
52DAP/47DAP	1.32457	0.377
57DAP/52DAP	1.44162	0.12
57DAP/7DAP	1.12037	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92257	0.27
17DAP/reference	0.97953	0.518
27DAP/reference	0.96377	0.462
39DAP/reference	0.93087	0.23
41DAP/reference	1.02834	1
42DAP/reference	0.92334	0.275
43DAP/reference	0.87351	0.21
47DAP/reference	0.85386	0.101
52DAP/reference	0.94109	0.304
57DAP/reference	0.90738	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07208	0.62
17DAP/reference	0.99874	0.786
27DAP/reference	0.88208	0.111
39DAP/reference	0.81191	0.129
41DAP/reference	0.83733	0.098
42DAP/reference	0.85231	0.15
43DAP/reference	1.1233	0.268
47DAP/reference	1.04734	0.658
52DAP/reference	0.96383	0.22
57DAP/reference	1.15192	0.104

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85311	0.104
17DAP/reference	1.04734	0.65
27DAP/reference	0.88314	0.102
39DAP/reference	0.83462	0.063
41DAP/reference	0.90248	0.371
42DAP/reference	0.72333	0.032
43DAP/reference	0.65025	0.022
47DAP/reference	0.94115	0.371
52DAP/reference	0.7527	0.068
57DAP/reference	0.47815	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13428	0.817
26DAP/20DAP	1.10533	1
34DAP/26DAP	1.45717	0.819
51DAP/34DAP	2.68897
52DAP/51DAP	1.45526	0.073
53DAP/52DAP	0.68034	0.202
55DAP/53DAP	1.70278	0.109
57DAP/55DAP	0.79074	0.256
62DAP/57DAP	1.11053	0.8
68DAP/62DAP	1.21618	0.939
68DAP/14DAP	0.65016	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54449	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.2704
Mature Green Tomato/Ripe Tomato	0.7466	0.569
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	10.5624
Mature Eggplant/Ripe Tomato	1.24213

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01159	1
1-1-2/M82	0.97401	1
12-2/M82	1.02859	1
12-4/M82	1.08056
1-3/M82	0.95786	1
2-1-1/M82	1.14942	0.764
2-1/M82	1.15934	1
2-6/M82	1.12986	0.695
3-2/M82	0.96423
4-1-1/M82	0.9307	1
4-1/M82	0.95344
4-3-2/M82	0.94051
4-3/M82	0.80728	0.72
5-3/M82	0.94328	0.49
6-2/M82	0.97458	1
6-3/M82	1.06048	1
7-1/M82	1.3143
7-2/M82	0.91949	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.53085	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93734
IL12-4/WTpooled	1.32093	0.516
IL1-4/WTpooled	1.00639	1
WT/WTpooled	1.07737	0.999

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	1.27083	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05981	0.921
DC3000/delta hrp 6h	1.2831	1
DC3000/delta hrp 12h	1.61185	1
DC3000/delta hrp 24h	0.97581	0.851

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01184	0.648
DC3000 delta B/DC3000 delta AB	1.14574	0.415

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98446	1
Exp 36h	1.14504	1
Exp 60h	1.00129	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98156	1
Var 0h	0.54023	0.98
Var 12h I row2-row1	1.0667	0.506
Var 12h NI row2-row1	0.98173	1
Var 36h I row2-row1	0.98298	1
Var 36h NI row2-row1	2.07451	1
Var 60h I row2-row1	0.85734	0.287
Var 60h NI row2-row1	1.15213	0.904
Time course 0hI-0hNI	0.92588	0.373
Time course 12hI-12hNI	1.05825	0.647
Time course 36hI-36hNI	1.27467	0.006
Time course 60hI-60hNI	1.20505	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)	0.90756	0.409
transgenic ySAMdc/azygous control (breaker)	1.08635	0.248
transgenic ySAMdc/azygous control (red)	1.03026	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00294	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02478	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35652	0.105
Manapal/WT (break)	1.33212	0.14
Manapal/WT (red)	1.07014	1