Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.10.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82012	0.464
27DAP/17DAP	0.76631	0.46
39DAP/27DAP	0.88203	0.583
41DAP/39DAP	1.02258	0.964
42DAP/41DAP	1.30154	0.654
43DAP/42DAP	0.80269	0.736
47DAP/43DAP	1.36614	0.442
52DAP/47DAP	0.85678	0.633
57DAP/52DAP	1.0618	0.764

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07539	0.48
17DAP/reference	1.20176	0.148
27DAP/reference	1.09425	0.648
39DAP/reference	1.06957	0.722
41DAP/reference	1.03367	0.542
42DAP/reference	0.89185	0.091
43DAP/reference	1.1899	0.325
47DAP/reference	0.92557	0.279
52DAP/reference	0.78877	0.091
57DAP/reference	0.89149	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07347	0.508
27DAP/17DAP	1.03848	0.942
39DAP/27DAP	1.07505	0.581
41DAP/39DAP	1.10595	0.663
42DAP/41DAP	1.0425	0.719
43DAP/42DAP	1.05431	0.699
47DAP/43DAP	1.08323	0.678
52DAP/47DAP	0.94426	0.655
57DAP/52DAP	1.01178	0.929
57DAP/7DAP	1.54741	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1262	0.961
17DAP/reference	1.20782	0.328
27DAP/reference	1.09796	0.301
39DAP/reference	0.82449	0.049
41DAP/reference	0.99929	0.741
42DAP/reference	1.05262	0.889
43DAP/reference	1.32091	0.041
47DAP/reference	0.97405	0.671
52DAP/reference	1.0719	0.732
57DAP/reference	1.38968	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0516	0.741
17DAP/reference	1.11777	0.557
27DAP/reference	0.81274	0.062
39DAP/reference	0.863	0.159
41DAP/reference	0.78541	0.064
42DAP/reference	0.87925	0.261
43DAP/reference	1.06688	0.641
47DAP/reference	0.87438	0.062
52DAP/reference	0.80852	0.078
57DAP/reference	1.0744	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01208	1
17DAP/reference	1.02078	0.9
27DAP/reference	1.32958	0.325
39DAP/reference	1.24671	0.218
41DAP/reference	1.08647	0.537
42DAP/reference	0.97457	0.671
43DAP/reference	0.85136	0.294
47DAP/reference	0.8637	0.174
52DAP/reference	1.98165	0.209
57DAP/reference	0.84066	0.062

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24033	0.945
26DAP/20DAP	2.82484	0.102
34DAP/26DAP	0.70357	0.159
51DAP/34DAP	0.34543	0.049
52DAP/51DAP	1.11423	0.377
53DAP/52DAP	0.69068	0.091
55DAP/53DAP	1.04883	0.861
57DAP/55DAP	1.21963	0.694
62DAP/57DAP	1.01735	1
68DAP/62DAP	0.90334	0.641
68DAP/14DAP	0.30445	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66104	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	14.7448	0.058
Mature Green Tomato/Ripe Tomato	0.72383	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.41793	1
Mature Eggplant/Ripe Tomato	2.21901	1

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	0.87337	0.619
1-3/M82	1.22359
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	0.97004	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.71868
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	0.98352	1
IL2-6/WTpooled	0.8965	1
IL7-5/WTpooled	0.74434	1
IL7-3/WTpooled	1.007	1
IL12-4/WTpooled	0.84806	0.554
IL1-4/WTpooled	1.03475	1
WT/WTpooled	1.05352	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	0.82532	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.70404	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.78735	1
DC3000/delta hrp 24h	0.81798	0.292

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	1.06712	0.738

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99949	1
Exp 36h	1.63809	0.693
Exp 60h	1.18489	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05449	1
Var 0h	0.47512	1
Var 12h I row2-row1	1.21627	0.406
Var 12h NI row2-row1	1.17284	1
Var 36h I row2-row1	1.04769	1
Var 36h NI row2-row1	0.94038	0.706
Var 60h I row2-row1	0.90855	0.832
Var 60h NI row2-row1	1.13583	0.904
Time course 0hI-0hNI	1.08097	0.799
Time course 12hI-12hNI	1.05241	0.724
Time course 36hI-36hNI	1.02826	0.799
Time course 60hI-60hNI	0.92886	0.319

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)	0.97122	0.789
transgenic ySAMdc/azygous control (breaker)	1.13112	1
transgenic ySAMdc/azygous control (red)	1.05588	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14781	0.039

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93068	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53765	0.14
Manapal/WT (break)	1.30981	0.14
Manapal/WT (red)	1.44174	0.222