Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.7.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35234	0.255
27DAP/17DAP	2.20607	0.078
39DAP/27DAP	1.84939	0.073
41DAP/39DAP	0.73033	0.139
42DAP/41DAP	1.03402	1
43DAP/42DAP	2.36925	0.019
47DAP/43DAP	1.18049	0.261
52DAP/47DAP	1.06302	0.946
57DAP/52DAP	0.87045	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43715	0.589
17DAP/reference	1.05217	1
27DAP/reference	0.61928	0.04
39DAP/reference	1.14492
41DAP/reference	1.2999	0.02
42DAP/reference	1.56531	0.032
43DAP/reference	0.96474	0.785
47DAP/reference	1.03632	0.503
52DAP/reference	1.26392	0.951
57DAP/reference	0.86832

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98563	0.75
27DAP/17DAP	1.05217	0.893
39DAP/27DAP	1.1963	0.347
41DAP/39DAP	0.81528	0.055
42DAP/41DAP	1.244	0.031
43DAP/42DAP	1.42364	0.02
47DAP/43DAP	0.8892	0.259
52DAP/47DAP	1.61601	0.112
57DAP/52DAP	1.61789	0.037
57DAP/7DAP	1.46917	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67567	0.05
17DAP/reference	0.95395	0.389
27DAP/reference	N/A	N/A
39DAP/reference	0.83211	0.126
41DAP/reference	0.99258	0.512
42DAP/reference	0.81181	0.053
43DAP/reference	1.15611	1
47DAP/reference	1.01617	1
52DAP/reference	0.94127	0.363
57DAP/reference	0.94909	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76676	0.231
17DAP/reference	1.29507	0.892
27DAP/reference	0.81199	0.013
39DAP/reference	1.0868	0.569
41DAP/reference	1.23321	0.513
42DAP/reference	1.10008	0.259
43DAP/reference	0.7423	0.068
47DAP/reference	1.10196	0.867
52DAP/reference	1.31501	0.24
57DAP/reference	1.01089	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03625	1
17DAP/reference	1.21238	0.738
27DAP/reference	1.12973
39DAP/reference	0.40638
41DAP/reference	1.30006
42DAP/reference	1.37439
43DAP/reference	1.21425
47DAP/reference	0.98488	0.687
52DAP/reference	2.37639	0.201
57DAP/reference	1.09539	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94812
26DAP/20DAP	1.12644	1
34DAP/26DAP	1.47762	1
51DAP/34DAP	1.04188	0.967
52DAP/51DAP	2.10583	0.037
53DAP/52DAP	0.76456	0.15
55DAP/53DAP	1.47942	0.046
57DAP/55DAP	0.52063	0.068
62DAP/57DAP	1.09861	0.767
68DAP/62DAP	1.02426	1
68DAP/14DAP	1.30374	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65516	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.38765	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	20.327
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	1.52947
12-2/M82	N/A	N/A
12-4/M82	1.76515
1-3/M82	N/A	N/A
2-1-1/M82	0.87501
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.85645	0.455
4-1-1/M82	N/A	N/A
4-1/M82	2.83847
4-3-2/M82	1.14544	1
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	0.85511
7-2/M82	N/A	N/A
9-3-2/M82	1.48684	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03156
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.19266	1
IL12-4/WTpooled	0.70908	0.581
IL1-4/WTpooled	0.66807	0.834
WT/WTpooled	0.87946	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	1.12999	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.93635	0.725

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94717	0.436
DC3000 delta B/DC3000 delta AB	1.03525	0.655

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	0.98618	1
Var 0h	1.20949	0.325
Var 12h I row2-row1	0.91765	0.627
Var 12h NI row2-row1	0.88268	0.466
Var 36h I row2-row1	1.02132	1
Var 36h NI row2-row1	1.59708	1
Var 60h I row2-row1	0.99854	1
Var 60h NI row2-row1	1.10055	0.904
Time course 0hI-0hNI	0.97072	0.821
Time course 12hI-12hNI	0.98033	0.858
Time course 36hI-36hNI	0.79918	0.023
Time course 60hI-60hNI	0.48891	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)	1.78197	1
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	1.4599	0.237

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)	1.38282	0.381
Manapal/WT (red)	0.92649	0.728