Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17936	0.838
27DAP/17DAP	0.91359	0.817
39DAP/27DAP	1.14004	0.713
41DAP/39DAP	1.39274	0.229
42DAP/41DAP	1.2262	0.899
43DAP/42DAP	0.60059	0.302
47DAP/43DAP	0.86822	0.568
52DAP/47DAP	0.65378	0.185
57DAP/52DAP	1.49313	0.718

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15391	0.045
17DAP/reference	1.22193	0.015
27DAP/reference	0.99548	0.867
39DAP/reference	1.00522	1
41DAP/reference	1.05686	0.91
42DAP/reference	1.13693	0.125
43DAP/reference	0.81193	0.631
47DAP/reference	1.05171	0.708
52DAP/reference	0.83416	0.06
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06002	0.662
27DAP/17DAP	0.9411	0.58
39DAP/27DAP	1.23826	0.078
41DAP/39DAP	0.97938	0.997
42DAP/41DAP	1.0816	0.687
43DAP/42DAP	1.4927	0.015
47DAP/43DAP	0.88721	0.078
52DAP/47DAP	0.932	0.522
57DAP/52DAP	1.01256	1
57DAP/7DAP	1.25291	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93013	0.246
17DAP/reference	1.01908	1
27DAP/reference	0.97252	0.462
39DAP/reference	1.00784	0.745
41DAP/reference	0.9138	0.098
42DAP/reference	0.95068	0.289
43DAP/reference	0.86439	0.069
47DAP/reference	1.09476	0.504
52DAP/reference	0.87378	0.097
57DAP/reference	1.08947	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95566	0.669
17DAP/reference	1.07873	0.613
27DAP/reference	1.00089	0.765
39DAP/reference	1.09549	0.978
41DAP/reference	0.94931	0.441
42DAP/reference	0.96545	0.321
43DAP/reference	1.12077	0.457
47DAP/reference	1.05405	0.24
52DAP/reference	1.00627	0.761
57DAP/reference	1.29513	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99077	0.653
17DAP/reference	0.93593	0.571
27DAP/reference	0.70983	0.035
39DAP/reference	1.49218	0.285
41DAP/reference	0.9056	0.132
42DAP/reference	0.90778	0.361
43DAP/reference	0.79091	0.098
47DAP/reference	1.20698	0.019
52DAP/reference	0.87898	0.493
57DAP/reference	0.89948	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.199	0.966
26DAP/20DAP	0.95403	1
34DAP/26DAP	1.07584	1
51DAP/34DAP	0.96567	0.737
52DAP/51DAP	0.93319	1
53DAP/52DAP	1.00489	0.998
55DAP/53DAP	0.99773	0.917
57DAP/55DAP	1.08951	0.997
62DAP/57DAP	1.52207	0.678
68DAP/62DAP	1.15248	0.914
68DAP/14DAP	1.46093	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.70067	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.71886	0.015
Immature Eggplant/Mature Eggplant	0.49016
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.18412	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.63909
12-2/M82	N/A	N/A
12-4/M82	0.8378	0.619
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	0.84415
6-2/M82	N/A	N/A
6-3/M82	0.93177
7-1/M82	0.83812
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	N/A	N/A
IL2-6/WTpooled	1.77209	0.441
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.74336	0.418
IL12-4/WTpooled	0.99567	1
IL1-4/WTpooled	1.38087	0.426
WT/WTpooled	1.15331	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	0.87784	0.209

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	0.99322	0.95
DC3000/delta hrp 12h	0.97622	1
DC3000/delta hrp 24h	1.15831	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.85723	0.171
DC3000 delta B/DC3000 delta AB	0.87275	0.106

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.39501	0.449
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	N/A	N/A
Var 0h	0.80146	1
Var 12h I row2-row1	0.87326	0.363
Var 12h NI row2-row1	0.47615	0.627
Var 36h I row2-row1	0.9616
Var 36h NI row2-row1	0.92323	0.743
Var 60h I row2-row1	0.8914	0.832
Var 60h NI row2-row1	1.10602	0.904
Time course 0hI-0hNI	0.95945	0.777
Time course 12hI-12hNI	0.97556	0.964
Time course 36hI-36hNI	0.87544	0.026
Time course 60hI-60hNI	1.10209	1

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)	1.08277	0.511
transgenic ySAMdc/azygous control (breaker)	1.25884	1
transgenic ySAMdc/azygous control (red)	1.1154	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02975	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65708	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.42746	0.307
Manapal/WT (break)	1.43328	1
Manapal/WT (red)	1.35092	0.413