Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02145	0.876
27DAP/17DAP	1.28752	0.804
39DAP/27DAP	1.10615	0.99
41DAP/39DAP	1.00449	0.973
42DAP/41DAP	0.95012	1
43DAP/42DAP	1.28589	0.861
47DAP/43DAP	1.02919	0.965
52DAP/47DAP	1.92683	0.285
57DAP/52DAP	1.03787	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77141	0.106
17DAP/reference	0.75667	0.025
27DAP/reference	0.90317	0.101
39DAP/reference	0.80848	0.1
41DAP/reference	0.72381	0.009
42DAP/reference	0.8898	0.019
43DAP/reference	0.95816	0.594
47DAP/reference	1.02688	1
52DAP/reference	1.33381	0.012
57DAP/reference	1.40419	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12241	1
27DAP/17DAP	0.97055	0.887
39DAP/27DAP	1.24556	0.483
41DAP/39DAP	1.08412	0.817
42DAP/41DAP	0.86075	0.19
43DAP/42DAP	0.90621	0.447
47DAP/43DAP	1.37196	0.618
52DAP/47DAP	0.81443	0.46
57DAP/52DAP	1.15496	0.558
57DAP/7DAP	1.56935	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39047	0.063
17DAP/reference	1.44271	0.006
27DAP/reference	1.57234	0.007
39DAP/reference	1.60668	0.006
41DAP/reference	1.37522	0.016
42DAP/reference	1.65602	0.009
43DAP/reference	1.43279	0.007
47DAP/reference	1.46971	0.158
52DAP/reference	1.71058	0.008
57DAP/reference	1.71482	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83599	0.182
17DAP/reference	0.72945	0.015
27DAP/reference	0.81802	0.045
39DAP/reference	0.92725	0.306
41DAP/reference	0.82862	0.141
42DAP/reference	0.74346	0.035
43DAP/reference	0.82482	0.062
47DAP/reference	0.81973	0.027
52DAP/reference	1.07557	0.667
57DAP/reference	0.69047	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95926	0.422
17DAP/reference	0.95117	0.571
27DAP/reference	1.21225	0.149
39DAP/reference	1.15202	0.377
41DAP/reference	1.11104	0.197
42DAP/reference	1.27589	0.065
43DAP/reference	1.31797	0.04
47DAP/reference	0.89345	0.161
52DAP/reference	1.46157	0.295
57DAP/reference	1.78006	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04428	1
26DAP/20DAP	0.93974	1
34DAP/26DAP	1.15833	1
51DAP/34DAP	1.57529	0.045
52DAP/51DAP	0.94379	1
53DAP/52DAP	1.10086	0.783
55DAP/53DAP	0.95352	0.725
57DAP/55DAP	1.05176	0.975
62DAP/57DAP	1.06952	1
68DAP/62DAP	1.36536	0.272
68DAP/14DAP	3.46196	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44659	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.49365	0.136
Mature Green Tomato/Ripe Tomato	1.03988
Immature Eggplant/Mature Eggplant	1.43913	0.062
Ripe Pepper/Ripe Tomato	4.46184	0.256
Mature Eggplant/Ripe Tomato	1.57049

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	0.92474	1
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	1.34071
6-2/M82	N/A	N/A
6-3/M82	0.68037
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	1.17418	0.365
IL2-6/WTpooled	0.58827	0.473
IL7-5/WTpooled	1.11066	1
IL7-3/WTpooled	1.3478	1
IL12-4/WTpooled	0.76516	0.71
IL1-4/WTpooled	0.88174	0.834
WT/WTpooled	1.00916	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	0.99787	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2544	0.692
DC3000/delta hrp 6h	1.04929	0.95
DC3000/delta hrp 12h	0.96697	1
DC3000/delta hrp 24h	1.53857	0.113

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28761	0.208
DC3000 delta B/DC3000 delta AB	1.35349	0.113

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05483	1
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	1.14065	1
Var 0h	0.8462	0.261
Var 12h I row2-row1	0.90166	0.705
Var 12h NI row2-row1	1.21852	1
Var 36h I row2-row1	1.3229	0.742
Var 36h NI row2-row1	0.93874	0.852
Var 60h I row2-row1	0.99587	1
Var 60h NI row2-row1	0.85302	0.977
Time course 0hI-0hNI	1.04307	0.87
Time course 12hI-12hNI	1.27271	0.65
Time course 36hI-36hNI	1.34633	0.017
Time course 60hI-60hNI	3.32684	0.009

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)	1.18147	0.3
transgenic ySAMdc/azygous control (breaker)	0.95139	1
transgenic ySAMdc/azygous control (red)	0.99504	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06988	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76622	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83854	1
Manapal/WT (break)	0.8645	1
Manapal/WT (red)	1.19057	0.413