Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.16.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22799	0.534
27DAP/17DAP	0.95368	0.941
39DAP/27DAP	1.01012	1
41DAP/39DAP	1.03578	0.96
42DAP/41DAP	0.94085	1
43DAP/42DAP	1.16351	0.778
47DAP/43DAP	0.93747	0.736
52DAP/47DAP	1.07654	0.993
57DAP/52DAP	1.23651	0.638

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03563	0.872
17DAP/reference	1.01742	1
27DAP/reference	1.06613	0.637
39DAP/reference	0.93313	0.174
41DAP/reference	0.90341	0.201
42DAP/reference	0.88442	0.027
43DAP/reference	1.02544	0.899
47DAP/reference	0.94092	0.191
52DAP/reference	1.03073	1
57DAP/reference	1.14297	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47917	0.151
27DAP/17DAP	1.43371	0.357
39DAP/27DAP	0.93471	0.419
41DAP/39DAP	1.1041	0.781
42DAP/41DAP	1.14408	0.635
43DAP/42DAP	0.98438	0.96
47DAP/43DAP	0.79009	0.112
52DAP/47DAP	1.30087	0.512
57DAP/52DAP	1.07928	0.874
57DAP/7DAP	0.97341	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91667	0.326
17DAP/reference	0.9079	0.124
27DAP/reference	0.88619	0.117
39DAP/reference	0.87145	0.17
41DAP/reference	1.00532	0.848
42DAP/reference	0.95008	0.415
43DAP/reference	0.87472	0.079
47DAP/reference	0.87803	0.293
52DAP/reference	0.94949	0.363
57DAP/reference	0.89244	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92051	0.386
17DAP/reference	0.96478	0.499
27DAP/reference	0.84246	0.067
39DAP/reference	0.86548	0.11
41DAP/reference	1.00697	0.666
42DAP/reference	1.09999	0.73
43DAP/reference	0.85431	0.046
47DAP/reference	0.90123	0.159
52DAP/reference	0.91611	0.22
57DAP/reference	0.84393	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04622	0.846
17DAP/reference	0.91324	0.389
27DAP/reference	0.86458	0.038
39DAP/reference	0.93844	0.299
41DAP/reference	0.80838	0.043
42DAP/reference	0.98509	0.816
43DAP/reference	0.79903	0.038
47DAP/reference	0.96078	0.434
52DAP/reference	0.88067	0.242
57DAP/reference	0.97245	0.527

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9658	1
26DAP/20DAP	0.78962
34DAP/26DAP	0.51874	0.455
51DAP/34DAP	0.79311	0.394
52DAP/51DAP	1.23552	0.758
53DAP/52DAP	1.08702	1
55DAP/53DAP	0.93116	0.648
57DAP/55DAP	1.33859	0.525
62DAP/57DAP	0.72333	0.466
68DAP/62DAP	1.28103	0.29
68DAP/14DAP	1.23669	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1421	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.6387	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.01924

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00491
12-2/M82	N/A	N/A
12-4/M82	0.88256	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	0.85504
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.10565	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.11432	0.659
IL7-5/WTpooled	1.80497
IL7-3/WTpooled	0.94512	1
IL12-4/WTpooled	1.26619	0.553
IL1-4/WTpooled	0.62463
WT/WTpooled	1.04037	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	0.928	0.75

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	0.81242	0.95
DC3000/delta hrp 12h	0.83612	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82718	0.328
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	1.02492	1
Var 0h	0.67855	1
Var 12h I row2-row1	1.15683	0.58
Var 12h NI row2-row1	1.63645	0.649
Var 36h I row2-row1	0.89835	0.34
Var 36h NI row2-row1	0.56344	1
Var 60h I row2-row1	1.55559	1
Var 60h NI row2-row1	1.23576	0.904
Time course 0hI-0hNI	1.022	1
Time course 12hI-12hNI	1.09227	0.162
Time course 36hI-36hNI	0.92324	0.411
Time course 60hI-60hNI	1.06578	0.359

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)	0.96117	0.567
transgenic ySAMdc/azygous control (breaker)	0.83161	0.15
transgenic ySAMdc/azygous control (red)	1.15447	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0207	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97449	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8052	0.172
Manapal/WT (break)	0.81418	1
Manapal/WT (red)	1.00783	1