Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0416	0.901
27DAP/17DAP	1.09541	0.849
39DAP/27DAP	0.95763	0.7
41DAP/39DAP	1.07889	0.638
42DAP/41DAP	1.06046	0.912
43DAP/42DAP	1.07894	0.985
47DAP/43DAP	1.10828	0.52
52DAP/47DAP	0.85561	0.581
57DAP/52DAP	0.96299	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.05158	0.013
17DAP/reference	0.99882	0.777
27DAP/reference	1.01633	1
39DAP/reference	0.93806	0.446
41DAP/reference	0.7856	0.039
42DAP/reference	0.97902	0.398
43DAP/reference	0.71179	0.018
47DAP/reference	0.82151	0.023
52DAP/reference	0.64836	0.026
57DAP/reference	0.69894	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10018	0.934
27DAP/17DAP	1.05412	0.938
39DAP/27DAP	0.71178	0.032
41DAP/39DAP	0.96422	0.934
42DAP/41DAP	0.97633	0.77
43DAP/42DAP	0.97219	0.751
47DAP/43DAP	0.86422	0.16
52DAP/47DAP	1.39328	0.21
57DAP/52DAP	1.35419	0.131
57DAP/7DAP	0.77433	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91679	0.296
17DAP/reference	0.81677	0.064
27DAP/reference	0.90071	0.264
39DAP/reference	0.83951	0.064
41DAP/reference	0.84879	0.094
42DAP/reference	0.93729	0.32
43DAP/reference	0.86858	0.166
47DAP/reference	0.68827	0.128
52DAP/reference	0.76235	0.019
57DAP/reference	0.75366	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68754	0.047
17DAP/reference	1.31719	0.077
27DAP/reference	1.13999	0.471
39DAP/reference	0.60144	0.049
41DAP/reference	0.76743	0.024
42DAP/reference	0.92652	0.392
43DAP/reference	0.91672	0.37
47DAP/reference	0.71801	0.011
52DAP/reference	0.6396	0.004
57DAP/reference	0.72859	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93074	0.268
17DAP/reference	0.9335	0.452
27DAP/reference	0.62274	0.028
39DAP/reference	0.87556	0.147
41DAP/reference	0.77826	0.055
42DAP/reference	1.06689	0.907
43DAP/reference	0.9826	0.639
47DAP/reference	0.86837	0.168
52DAP/reference	0.70354	0.119
57DAP/reference	1.12323	0.939

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11083	1
26DAP/20DAP	0.95772	1
34DAP/26DAP	1.34852	0.819
51DAP/34DAP	1.06833	0.949
52DAP/51DAP	1.48841	0.041
53DAP/52DAP	0.9332	0.712
55DAP/53DAP	1.33274	0.05
57DAP/55DAP	0.69477	0.109
62DAP/57DAP	1.19901	0.8
68DAP/62DAP	0.74426	0.126
68DAP/14DAP	0.75847	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.35044	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.30869	0.113
Mature Green Tomato/Ripe Tomato	1.09433	0.814
Immature Eggplant/Mature Eggplant	0.3945	0.062
Ripe Pepper/Ripe Tomato	1.89988	1
Mature Eggplant/Ripe Tomato	2.75305	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.73484
12-2/M82	N/A	N/A
12-4/M82	1.06922	1
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	1.03016
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.14364	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.2716	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66538
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.67486	0.581
IL1-4/WTpooled	1.27799	1
WT/WTpooled	0.74484

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	0.84408	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04616	1
DC3000/delta hrp 6h	1.04417	1
DC3000/delta hrp 12h	1.01207	1
DC3000/delta hrp 24h	1.00065	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24125	0.102
DC3000 delta B/DC3000 delta AB	1.2504	0.274

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08891	1
Exp 36h	0.80869	0.449
Exp 60h	0.67628	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01447	1
Var 0h	0.84137	0.933
Var 12h I row2-row1	0.74835	0.357
Var 12h NI row2-row1	0.97308	0.906
Var 36h I row2-row1	0.88094	0.805
Var 36h NI row2-row1	1.23902	0.482
Var 60h I row2-row1	0.79648	0.374
Var 60h NI row2-row1	0.98616	1
Time course 0hI-0hNI	0.97828	0.903
Time course 12hI-12hNI	0.90583	0.33
Time course 36hI-36hNI	0.7728	0.023
Time course 60hI-60hNI	0.28244	0.005

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)	1.01349	0.748
transgenic ySAMdc/azygous control (breaker)	1.10951	1
transgenic ySAMdc/azygous control (red)	1.483	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90232	0.191

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.47239	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.19755	0.14
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.89703	0.607