Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11632	0.77
27DAP/17DAP	0.97688	0.873
39DAP/27DAP	0.71661	0.482
41DAP/39DAP	1.01117	0.873
42DAP/41DAP	1.26623	0.755
43DAP/42DAP	1.05061	1
47DAP/43DAP	1.1061	0.364
52DAP/47DAP	1.2524	0.721
57DAP/52DAP	1.15886	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11559	0.265
17DAP/reference	1.1073	0.034
27DAP/reference	1.0813	0.15
39DAP/reference	1.07393	0.061
41DAP/reference	1.00707	0.759
42DAP/reference	1.12901	0.007
43DAP/reference	0.95597	0.331
47DAP/reference	1.10988	0.089
52DAP/reference	0.94799	0.438
57DAP/reference	0.92198	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05236	0.99
27DAP/17DAP	0.90909	0.187
39DAP/27DAP	0.71039
41DAP/39DAP	0.871	0.747
42DAP/41DAP	0.71804	0.059
43DAP/42DAP	1.08912	0.746
47DAP/43DAP	1.01086	0.971
52DAP/47DAP	0.99173	0.901
57DAP/52DAP	1.08711	0.688
57DAP/7DAP	0.9131	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93457	0.445
17DAP/reference	0.94244	0.295
27DAP/reference	0.98624	0.53
39DAP/reference	1.15777	0.056
41DAP/reference	0.94337	0.375
42DAP/reference	0.94286	0.338
43DAP/reference	0.86269	0.202
47DAP/reference	0.85756	0.222
52DAP/reference	0.84402	0.015
57DAP/reference	1.31028	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17398	0.081
17DAP/reference	1.40461	0.009
27DAP/reference	1.07737	0.552
39DAP/reference	1.01793	1
41DAP/reference	0.98667	0.557
42DAP/reference	0.9073	0.261
43DAP/reference	1.17072	0.092
47DAP/reference	0.84416	0.02
52DAP/reference	1.13548	0.008
57DAP/reference	1.11391	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94575	0.422
17DAP/reference	1.27699	0.179
27DAP/reference	0.99833	0.843
39DAP/reference	1.33707	0.365
41DAP/reference	0.865	0.132
42DAP/reference	1.12431	0.51
43DAP/reference	1.22137	0.426
47DAP/reference	0.85442	0.093
52DAP/reference	0.83156	0.204
57DAP/reference	0.85001	0.212

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88883	0.733
26DAP/20DAP	0.94747	1
34DAP/26DAP	0.9155	0.97
51DAP/34DAP	0.90348	0.631
52DAP/51DAP	1.56132	0.163
53DAP/52DAP	0.97985	0.902
55DAP/53DAP	0.8066	0.35
57DAP/55DAP	0.78596	0.103
62DAP/57DAP	1.04247
68DAP/62DAP	0.70006	0.314
68DAP/14DAP	0.80843	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59903	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.90964	0.058
Mature Green Tomato/Ripe Tomato	1.22067	0.016
Immature Eggplant/Mature Eggplant	0.41459	0.057
Ripe Pepper/Ripe Tomato	4.61549	1
Mature Eggplant/Ripe Tomato	8.26346	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05774	1
1-1-2/M82	N/A	N/A
12-2/M82	0.88071
12-4/M82	0.88442	0.282
1-3/M82	1.37243	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.06683	1
3-2/M82	1.11681
4-1-1/M82	1.11488	1
4-1/M82	N/A	N/A
4-3-2/M82	1.10935
4-3/M82	1.01651	1
5-3/M82	1.44269	0.467
6-2/M82	1.3863	0.222
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.83743
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99567	1
IL2-6/WTpooled	0.88874	0.473
IL7-5/WTpooled	0.82695	1
IL7-3/WTpooled	0.80769	0.418
IL12-4/WTpooled	1.15982	0.595
IL1-4/WTpooled	1.04953	1
WT/WTpooled	1.03351	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	1.01821	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94732	1
DC3000/delta hrp 6h	1.05083	0.95
DC3000/delta hrp 12h	1.4058	1
DC3000/delta hrp 24h	1.08186	0.69

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	0.95301	0.766

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98782	1
Exp 36h	0.69683	0.449
Exp 60h	0.46874	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07821	1
Var 0h	0.9756	1
Var 12h I row2-row1	0.73066	0.514
Var 12h NI row2-row1	0.87466	0.82
Var 36h I row2-row1	0.81136	1
Var 36h NI row2-row1	1.24168	0.253
Var 60h I row2-row1	1.14582	1
Var 60h NI row2-row1	0.9819	1
Time course 0hI-0hNI	0.96119	0.795
Time course 12hI-12hNI	0.988	0.956
Time course 36hI-36hNI	1.15743	0.017
Time course 60hI-60hNI	0.69405	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)	0.95007	0.614
transgenic ySAMdc/azygous control (breaker)	2.07725	0.178
transgenic ySAMdc/azygous control (red)	1.12034	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81713	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.70477	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.69093	0.083
Manapal/WT (break)	5.0792	0.14
Manapal/WT (red)	3.29792	0.164