Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97113	0.779
27DAP/17DAP	1.05858	0.881
39DAP/27DAP	0.78181	0.425
41DAP/39DAP	1.30968	0.56
42DAP/41DAP	1.05641	1
43DAP/42DAP	1.10581	0.949
47DAP/43DAP	0.99365	0.934
52DAP/47DAP	0.85533	0.6
57DAP/52DAP	1.077	0.944

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04648	0.132
17DAP/reference	0.99427	0.858
27DAP/reference	1.00851	1
39DAP/reference	0.98644	0.816
41DAP/reference	1.12592	0.019
42DAP/reference	1.0831	0.008
43DAP/reference	0.96487	0.346
47DAP/reference	1.01591	0.728
52DAP/reference	1.1264	0.186
57DAP/reference	0.96515	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99287	0.826
27DAP/17DAP	0.97508	0.748
39DAP/27DAP	1.03427	0.626
41DAP/39DAP	1.05537	0.735
42DAP/41DAP	0.97559	0.751
43DAP/42DAP	1.02691	0.585
47DAP/43DAP	1.00664	0.963
52DAP/47DAP	1.0091	0.973
57DAP/52DAP	1.04243	0.703
57DAP/7DAP	1.02073	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95838	0.203
17DAP/reference	1.05553	0.016
27DAP/reference	1.02918	0.197
39DAP/reference	1.01958	0.411
41DAP/reference	1.00229	0.848
42DAP/reference	0.95177	0.035
43DAP/reference	1.03828	0.307
47DAP/reference	0.92914	0.168
52DAP/reference	0.99915	0.802
57DAP/reference	1.0612	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00835	0.874
17DAP/reference	1.03439	0.644
27DAP/reference	0.99265	0.663
39DAP/reference	1.02494	0.806
41DAP/reference	0.961	0.322
42DAP/reference	1.08015	0.543
43DAP/reference	1.00155	1
47DAP/reference	0.98994	0.609
52DAP/reference	1.04437	0.24
57DAP/reference	1.07652	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02734	0.56
17DAP/reference	1.01886	0.746
27DAP/reference	1.0703	0.143
39DAP/reference	1.01768	0.752
41DAP/reference	1.04434	0.286
42DAP/reference	0.97283	0.552
43DAP/reference	1.01269	0.84
47DAP/reference	1.01801	0.847
52DAP/reference	1.03351	0.77
57DAP/reference	0.8873	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99845	1
26DAP/20DAP	0.93302	0.512
34DAP/26DAP	1.05055	0.819
51DAP/34DAP	1.02819	0.84
52DAP/51DAP	0.96163	1
53DAP/52DAP	1.05014	0.712
55DAP/53DAP	0.9635	0.686
57DAP/55DAP	1.00273	0.944
62DAP/57DAP	1.12648	0.445
68DAP/62DAP	1.08424	0.788
68DAP/14DAP	0.98605	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95148	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.39133	0.08
Mature Green Tomato/Ripe Tomato	0.79204	0.132
Immature Eggplant/Mature Eggplant	1.61821	0.05
Ripe Pepper/Ripe Tomato	1.41086	1
Mature Eggplant/Ripe Tomato	1.27778	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06559	0.877
1-1-2/M82	0.88259	0.958
12-2/M82	1.01672	1
12-4/M82	0.92987	1
1-3/M82	0.69723
2-1-1/M82	1.15282	0.764
2-1/M82	0.98974
2-6/M82	1.14935	0.385
3-2/M82	1.03127
4-1-1/M82	1.0475	1
4-1/M82	1.18548
4-3-2/M82	0.85764	0.698
4-3/M82	1.0213	0.268
5-3/M82	1.0721	0.496
6-2/M82	1.1038
6-3/M82	0.9813	1
7-1/M82	0.93445
7-2/M82	0.9391	0.417
9-3-2/M82	0.87817	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8713
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.81487
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.833	0.834
WT/WTpooled	1.02725	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	1.0071	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95173	1
DC3000/delta hrp 6h	1.2945	1
DC3000/delta hrp 12h	1.03031	1
DC3000/delta hrp 24h	1.06479	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0176	0.598
DC3000 delta B/DC3000 delta AB	1.07311	0.42

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	1.00843	1
Var 0h	1.01928	1
Var 12h I row2-row1	1.1092	0.283
Var 12h NI row2-row1	0.97512	0.546
Var 36h I row2-row1	0.95518	1
Var 36h NI row2-row1	0.9022	0.706
Var 60h I row2-row1	1.22082	0.562
Var 60h NI row2-row1	1.08946	0.904
Time course 0hI-0hNI	1.08557	0.799
Time course 12hI-12hNI	1.04092	0.754
Time course 36hI-36hNI	1.02734	0.58
Time course 60hI-60hNI	1.12814	0.037

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)	1.41057	0.408
transgenic ySAMdc/azygous control (breaker)	0.77132	0.173
transgenic ySAMdc/azygous control (red)	0.99586	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99392	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72876	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91239	1
Manapal/WT (break)	0.86619	1
Manapal/WT (red)	0.95286	0.728