Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05291	0.838
27DAP/17DAP	1.1723	0.808
39DAP/27DAP	0.89485	0.482
41DAP/39DAP	1.58937	0.392
42DAP/41DAP	1.11584	1
43DAP/42DAP	0.95764	0.877
47DAP/43DAP	1.16715	0.542
52DAP/47DAP	1.23114	0.572
57DAP/52DAP	1.04035	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09705	0.179
17DAP/reference	0.98193	0.536
27DAP/reference	0.98091	0.567
39DAP/reference	0.99411	0.901
41DAP/reference	1.07744	0.085
42DAP/reference	1.16527	0.013
43DAP/reference	0.97091	0.464
47DAP/reference	1.04984	0.295
52DAP/reference	1.11055	0.354
57DAP/reference	0.88579	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99081	0.801
27DAP/17DAP	1.04675	0.909
39DAP/27DAP	1.03789	0.742
41DAP/39DAP	0.98562	1
42DAP/41DAP	1.10566	0.425
43DAP/42DAP	1.03209	0.627
47DAP/43DAP	1.03535	0.926
52DAP/47DAP	1.03099	0.892
57DAP/52DAP	0.9663	0.628
57DAP/7DAP	1.05585	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92733	0.059
17DAP/reference	0.9792	0.167
27DAP/reference	0.99213	0.614
39DAP/reference	0.99208	0.474
41DAP/reference	0.91086	0.094
42DAP/reference	0.89443	0.012
43DAP/reference	1.04567	0.386
47DAP/reference	0.95341	0.383
52DAP/reference	0.95566	0.332
57DAP/reference	1.02453	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09106	0.093
17DAP/reference	1.16598	0.044
27DAP/reference	1.17214	0.427
39DAP/reference	1.09992	0.489
41DAP/reference	1.12648	0.394
42DAP/reference	1.0412	0.915
43DAP/reference	1.2091	0.014
47DAP/reference	1.01888	0.89
52DAP/reference	1.15784	0.012
57DAP/reference	1.19266	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95182	0.183
17DAP/reference	1.00792	0.912
27DAP/reference	0.99331	0.691
39DAP/reference	1.01851	0.836
41DAP/reference	1.00325	1
42DAP/reference	1.15331	0.321
43DAP/reference	0.99278	0.712
47DAP/reference	0.96318	0.371
52DAP/reference	1.02483	0.851
57DAP/reference	0.90218	0.152

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94902	1
26DAP/20DAP	0.86548	0.512
34DAP/26DAP	0.96305	0.909
51DAP/34DAP	0.94377	0.667
52DAP/51DAP	0.94486	1
53DAP/52DAP	0.9771	0.96
55DAP/53DAP	1.13224	0.301
57DAP/55DAP	1.11823	0.826
62DAP/57DAP	1.01729	1
68DAP/62DAP	0.89456	0.579
68DAP/14DAP	0.9661	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95549	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.82317	0.317
Immature Eggplant/Mature Eggplant	1.51283	0.05
Ripe Pepper/Ripe Tomato	0.97849	1
Mature Eggplant/Ripe Tomato	0.7171	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00667	1
1-1-2/M82	1.03988	1
12-2/M82	1.16341	1
12-4/M82	0.99914	1
1-3/M82	0.78387
2-1-1/M82	1.10673
2-1/M82	N/A	N/A
2-6/M82	0.96434	1
3-2/M82	0.95139
4-1-1/M82	0.90265
4-1/M82	0.94825	1
4-3-2/M82	0.85481	0.487
4-3/M82	0.72112	0.551
5-3/M82	0.937	1
6-2/M82	N/A	N/A
6-3/M82	1.02786	1
7-1/M82	N/A	N/A
7-2/M82	1.0056	0.385
9-3-2/M82	0.87856	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.98809
WT/WTpooled	N/A	N/A

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	0.95071	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00714	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.98756	1
DC3000/delta hrp 24h	1.09174	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19266	0.073
DC3000 delta B/DC3000 delta AB	0.99697	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97644	1
Exp 36h	1.26702	0.409
Exp 60h	1.59444	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98227	1
Var 0h	0.89829	0.933
Var 12h I row2-row1	1.00342	1
Var 12h NI row2-row1	0.90633	0.494
Var 36h I row2-row1	0.99099	1
Var 36h NI row2-row1	0.95304	0.706
Var 60h I row2-row1	2.03218	1
Var 60h NI row2-row1	0.88992	0.932
Time course 0hI-0hNI	1.06053	0.833
Time course 12hI-12hNI	1.02321	0.816
Time course 36hI-36hNI	1.00551	0.89
Time course 60hI-60hNI	0.90157	0.081

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)	1.11542	0.232
transgenic ySAMdc/azygous control (breaker)	1.0207	1
transgenic ySAMdc/azygous control (red)	1.15097	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98018	0.286

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9992	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32005	0.14
Manapal/WT (break)	1.03456	1
Manapal/WT (red)	1.0622	1