Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93424	0.596
27DAP/17DAP	0.89235	0.746
39DAP/27DAP	0.84429	0.522
41DAP/39DAP	1.24925	0.58
42DAP/41DAP	1.04996	1
43DAP/42DAP	0.96256	0.909
47DAP/43DAP	0.87287	0.628
52DAP/47DAP	1.26356	0.608
57DAP/52DAP	0.84752	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42672	0.11
17DAP/reference	0.93343	0.474
27DAP/reference	1.33449	0.089
39DAP/reference	0.91473	0.475
41DAP/reference	0.71466	0.201
42DAP/reference	1.18528	0.632
43DAP/reference	1.19381	0.035
47DAP/reference	1.18611	1
52DAP/reference	2.05329	0.033
57DAP/reference	1.57921	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89323	0.219
27DAP/17DAP	1.04244	0.942
39DAP/27DAP	1.0428	0.707
41DAP/39DAP	1.12884	0.439
42DAP/41DAP	0.8943	0.368
43DAP/42DAP	1.0435	0.554
47DAP/43DAP	1.01865	0.957
52DAP/47DAP	0.96663	0.857
57DAP/52DAP	1.05553	0.662
57DAP/7DAP	1.08441	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23898	0.088
17DAP/reference	1.18254	0.059
27DAP/reference	1.1057	0.131
39DAP/reference	1.21014	0.865
41DAP/reference	1.28718	0.136
42DAP/reference	1.73777	0.013
43DAP/reference	1.85467	0.006
47DAP/reference	1.33894	0.045
52DAP/reference	1.4628	0.014
57DAP/reference	1.6615	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92485	0.548
17DAP/reference	0.90816	0.279
27DAP/reference	1.30563	0.648
39DAP/reference	1.50584	0.039
41DAP/reference	1.95094	0.014
42DAP/reference	1.2101	0.153
43DAP/reference	1.48169	0.507
47DAP/reference	0.76882	0.038
52DAP/reference	0.88137	0.156
57DAP/reference	0.4095	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03346	0.864
17DAP/reference	0.89748	0.328
27DAP/reference	1.08241	0.325
39DAP/reference	0.99829	0.819
41DAP/reference	0.97097	0.56
42DAP/reference	1.66327	0.239
43DAP/reference	1.65392	0.175
47DAP/reference	1.32249	0.585
52DAP/reference	0.86342	0.242
57DAP/reference	2.85336	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13855	0.966
26DAP/20DAP	0.94874	1
34DAP/26DAP	1.03773	1
51DAP/34DAP	0.7773	0.067
52DAP/51DAP	1.12946	0.821
53DAP/52DAP	0.85559	0.177
55DAP/53DAP	0.9181	0.462
57DAP/55DAP	0.95328	0.703
62DAP/57DAP	1.14379	0.935
68DAP/62DAP	3.55232	0.089
68DAP/14DAP	8.53643	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49167	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.19358	0.058
Mature Green Tomato/Ripe Tomato	1.1358	0.209
Immature Eggplant/Mature Eggplant	1.28364	0.056
Ripe Pepper/Ripe Tomato	0.40365	0.224
Mature Eggplant/Ripe Tomato	0.67071

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99443	1
IL2-6/WTpooled	1.21337	0.531
IL7-5/WTpooled	1.06667	0.75
IL7-3/WTpooled	1.15541	1
IL12-4/WTpooled	1.15234	0.673
IL1-4/WTpooled	0.95655	0.834
WT/WTpooled	0.91449	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	1.21703	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.09709	1
DC3000/delta hrp 12h	1.09836	1
DC3000/delta hrp 24h	1.15307	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07965
DC3000 delta B/DC3000 delta AB	1.25994	0.166

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09657	1
Exp 36h	1.01543	1
Exp 60h	1.27897	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01059	1
Var 0h	1.51488	0.98
Var 12h I row2-row1	0.96664	0.338
Var 12h NI row2-row1	1.10049	0.649
Var 36h I row2-row1	1.1045	0.298
Var 36h NI row2-row1	0.89741	0.706
Var 60h I row2-row1	0.8909	0.374
Var 60h NI row2-row1	0.96042	0.866
Time course 0hI-0hNI	1.07163	0.63
Time course 12hI-12hNI	1.04423	0.747
Time course 36hI-36hNI	1.28071	0.035
Time course 60hI-60hNI	1.52295	0.008

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)	0.92244	0.309
transgenic ySAMdc/azygous control (breaker)	0.73361	0.139
transgenic ySAMdc/azygous control (red)	1.02842	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99698	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03466	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89982	1
Manapal/WT (break)	1.13813	1
Manapal/WT (red)	1.04413	1