Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.2.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77022	0.087
27DAP/17DAP	0.97875	0.959
39DAP/27DAP	1.31257	0.566
41DAP/39DAP	1.70625	0.468
42DAP/41DAP	0.89204	1
43DAP/42DAP	0.66233	0.454
47DAP/43DAP	1.01589	0.828
52DAP/47DAP	1.29705	0.949
57DAP/52DAP	0.95426	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10106	0.278
17DAP/reference	1.06752	0.248
27DAP/reference	1.08827	0.435
39DAP/reference	1.11314	0.149
41DAP/reference	1.07292	0.48
42DAP/reference	1.12008	0.009
43DAP/reference	0.97259	0.576
47DAP/reference	1.13939	0.032
52DAP/reference	1.06625	0.32
57DAP/reference	0.9428	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83065	0.141
27DAP/17DAP	1.037	0.928
39DAP/27DAP	0.98957	0.977
41DAP/39DAP	0.86524	0.372
42DAP/41DAP	1.15383	0.487
43DAP/42DAP	1.16517	0.176
47DAP/43DAP	0.94582	0.617
52DAP/47DAP	0.925	0.655
57DAP/52DAP	1.09295	0.79
57DAP/7DAP	1.06598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87685	0.224
17DAP/reference	0.73052	0.015
27DAP/reference	0.8697	0.023
39DAP/reference	0.7873	0.011
41DAP/reference	0.80324	0.037
42DAP/reference	0.66559	0.01
43DAP/reference	0.78929	0.049
47DAP/reference	0.80151	0.222
52DAP/reference	0.81466	0.031
57DAP/reference	0.74323	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17597	0.062
17DAP/reference	1.17916	0.025
27DAP/reference	1.22667	0.114
39DAP/reference	1.09037	0.502
41DAP/reference	0.97054	0.422
42DAP/reference	1.13673	0.288
43DAP/reference	1.53606	0.012
47DAP/reference	1.03519	0.916
52DAP/reference	1.02459	0.882
57DAP/reference	1.14128	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86018	0.071
17DAP/reference	0.96019	0.571
27DAP/reference	0.78588	0.047
39DAP/reference	0.83887	0.069
41DAP/reference	0.98892	0.682
42DAP/reference	1.68759	0.658
43DAP/reference	0.86466	0.179
47DAP/reference	1.09531	0.501
52DAP/reference	0.90449	0.368
57DAP/reference	1.61532	0.204

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12998	0.966
26DAP/20DAP	1.14663	0.437
34DAP/26DAP	0.94944	0.92
51DAP/34DAP	0.82139	0.555
52DAP/51DAP	1.16534	0.492
53DAP/52DAP	0.86794	0.409
55DAP/53DAP	1.22935	0.083
57DAP/55DAP	0.91737	0.612
62DAP/57DAP	0.98027	0.994
68DAP/62DAP	0.99706	0.863
68DAP/14DAP	0.87705	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.04955	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8806	0.377
Mature Green Tomato/Ripe Tomato	0.98295	0.774
Immature Eggplant/Mature Eggplant	1.68124	0.05
Ripe Pepper/Ripe Tomato	0.45884	0.224
Mature Eggplant/Ripe Tomato	0.931	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20154	0.591
1-1-2/M82	0.67122	N/A
12-2/M82	1.2359	1
12-4/M82	1.1843	N/A
1-3/M82	1.13156	N/A
2-1-1/M82	0.98192	N/A
2-1/M82	N/A	N/A
2-6/M82	0.85042	1
3-2/M82	N/A	N/A
4-1-1/M82	0.84852	N/A
4-1/M82	0.97225	1
4-3-2/M82	0.88182	1
4-3/M82	1.03459	1
5-3/M82	1.0569	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.82408	0.414
9-3-2/M82	1.01776	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	0.97637	N/A
WT/WTpooled	0.91839	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	0.98628	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00807	1
DC3000/delta hrp 6h	0.95714	0.95
DC3000/delta hrp 12h	0.81429	1
DC3000/delta hrp 24h	0.97775	0.875

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.55083	N/A
DC3000 delta B/DC3000 delta AB	1.03342	0.687

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86032	1
Exp 36h	1.2291	0.693
Exp 60h	1.12649	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01295	1
Var 0h	0.80112	0.98
Var 12h I row2-row1	1.23528	0.272
Var 12h NI row2-row1	0.89394	0.443
Var 36h I row2-row1	0.95313	0.805
Var 36h NI row2-row1	1.22475	1
Var 60h I row2-row1	0.97812	0.952
Var 60h NI row2-row1	0.9579	1
Time course 0hI-0hNI	0.97809	0.866
Time course 12hI-12hNI	0.99576	1
Time course 36hI-36hNI	0.97228	0.269
Time course 60hI-60hNI	1.22054	0.01

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)	1.09961	0.347
transgenic ySAMdc/azygous control (breaker)	1.15947	0.248
transgenic ySAMdc/azygous control (red)	0.94023	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04326	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33362	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87897	1
Manapal/WT (break)	0.85224	0.297
Manapal/WT (red)	0.8751	0.36