Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.3.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90998	0.558
27DAP/17DAP	1.08576	0.871
39DAP/27DAP	1.16795	0.725
41DAP/39DAP	1.01047	0.978
42DAP/41DAP	0.95309	1
43DAP/42DAP	0.84009	0.695
47DAP/43DAP	1.33866	0.313
52DAP/47DAP	1.22026	0.649
57DAP/52DAP	1.1197	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03251	0.76
17DAP/reference	1.05867	0.193
27DAP/reference	0.97745	0.471
39DAP/reference	1.01729	0.771
41DAP/reference	0.99579	1
42DAP/reference	1.01718	0.756
43DAP/reference	0.99855	0.924
47DAP/reference	1.15252	0.002
52DAP/reference	1.15048	0.149
57DAP/reference	1.12155	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75207	0.17
27DAP/17DAP	1.23682	0.527
39DAP/27DAP	0.9278	0.54
41DAP/39DAP	0.95279	0.893
42DAP/41DAP	0.95427	0.704
43DAP/42DAP	0.91826	0.336
47DAP/43DAP	1.03189	0.93
52DAP/47DAP	0.8509	0.338
57DAP/52DAP	0.93231	0.551
57DAP/7DAP	1.41052	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15876	0.564
17DAP/reference	1.12211	0.477
27DAP/reference	1.16459	0.16
39DAP/reference	1.25769	0.09
41DAP/reference	1.13993	0.171
42DAP/reference	1.08091	0.686
43DAP/reference	0.96938	0.421
47DAP/reference	1.15844	0.571
52DAP/reference	1.24651	0.183
57DAP/reference	1.18074	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0813	0.582
17DAP/reference	1.0299	0.806
27DAP/reference	1.12353	0.463
39DAP/reference	1.09653	0.136
41DAP/reference	1.06849	0.831
42DAP/reference	1.03693	1
43DAP/reference	1.09063	0.453
47DAP/reference	0.99657	0.678
52DAP/reference	1.18988	0.017
57DAP/reference	1.11056	0.2

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23028	0.146
17DAP/reference	1.06756	0.775
27DAP/reference	1.1421	0.392
39DAP/reference	1.36608	0.036
41DAP/reference	1.27441	0.134
42DAP/reference	1.39179	0.074
43DAP/reference	1.24746	0.151
47DAP/reference	0.86284	0.069
52DAP/reference	1.30573	0.262
57DAP/reference	1.13016	0.694

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0268	0.966
26DAP/20DAP	1.26604	0.464
34DAP/26DAP	0.93994	0.909
51DAP/34DAP	0.96523	0.758
52DAP/51DAP	1.05267	0.842
53DAP/52DAP	1.22092	0.697
55DAP/53DAP	1.04641	0.964
57DAP/55DAP	1.01009	0.953
62DAP/57DAP	0.96252
68DAP/62DAP	1.01609	0.939
68DAP/14DAP	1.19018	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.89286	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.49705	0.058
Mature Green Tomato/Ripe Tomato	1.35731	0.523
Immature Eggplant/Mature Eggplant	0.7922	0.071
Ripe Pepper/Ripe Tomato	0.14605	0.224
Mature Eggplant/Ripe Tomato	0.40123	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.69126	0.574
1-1-2/M82	0.92852
12-2/M82	1.30494
12-4/M82	0.98265	1
1-3/M82	1.45966	0.26
2-1-1/M82	1.06566
2-1/M82	1.59854
2-6/M82	0.88213	0.501
3-2/M82	1.18377	0.967
4-1-1/M82	1.23646	1
4-1/M82	0.96511
4-3-2/M82	0.74094	0.487
4-3/M82	0.98845	1
5-3/M82	1.14849	1
6-2/M82	N/A	N/A
6-3/M82	0.77528	1
7-1/M82	1.18455	0.539
7-2/M82	1.18463	0.385
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	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	N/A	N/A
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	1.11692	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9624	1
DC3000/delta hrp 6h	0.8982	0.95
DC3000/delta hrp 12h	1.04382	1
DC3000/delta hrp 24h	1.4402	0.082

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	1.25958

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10858	1
Exp 36h	0.70115	0.426
Exp 60h	0.57588	0.253

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	0.92779	1
Var 12h I row2-row1	1.04314	0.204
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.92793	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.86509
Var 60h NI row2-row1	0.90124	0.292
Time course 0hI-0hNI	1.09248	0.799
Time course 12hI-12hNI	1.22579	0.272
Time course 36hI-36hNI	1.08087	0.975
Time course 60hI-60hNI	0.90029	0.646

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)	0.96607	0.722
transgenic ySAMdc/azygous control (breaker)	0.37028	0.118
transgenic ySAMdc/azygous control (red)	1.40753	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99026	0.737

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88482	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14686	0.307
Manapal/WT (break)	0.73359	0.333
Manapal/WT (red)	1.06463	1