Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22933	0.336
27DAP/17DAP	0.99896	1
39DAP/27DAP	1.05849	0.992
41DAP/39DAP	0.93586	0.726
42DAP/41DAP	0.84163	0.774
43DAP/42DAP	1.00167	0.937
47DAP/43DAP	0.79674	0.395
52DAP/47DAP	1.20279	0.657
57DAP/52DAP	0.96944	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12157	0.403
17DAP/reference	0.97394	0.567
27DAP/reference	0.95214	0.295
39DAP/reference	0.93989	0.276
41DAP/reference	0.88416	0.085
42DAP/reference	0.97064	0.278
43DAP/reference	1.04149	0.403
47DAP/reference	0.90007	0.023
52DAP/reference	1.05314	0.878
57DAP/reference	0.96341	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09777	0.312
27DAP/17DAP	0.89861	0.259
39DAP/27DAP	0.88219	0.126
41DAP/39DAP	1.04261	0.853
42DAP/41DAP	0.9484	0.579
43DAP/42DAP	0.93407	0.308
47DAP/43DAP	0.94947	0.666
52DAP/47DAP	1.08466	0.734
57DAP/52DAP	0.99082	0.833
57DAP/7DAP	1.00462	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05076	0.409
17DAP/reference	1.01712	0.688
27DAP/reference	0.98386	0.248
39DAP/reference	1.01225	0.46
41DAP/reference	0.93383	0.076
42DAP/reference	0.91229	0.012
43DAP/reference	0.96205	0.279
47DAP/reference	0.92288	0.383
52DAP/reference	0.90342	0.179
57DAP/reference	0.90674	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97805	0.756
17DAP/reference	0.95246	0.447
27DAP/reference	0.98793	0.576
39DAP/reference	1.02374	0.745
41DAP/reference	1.07181	0.781
42DAP/reference	1.02988	1
43DAP/reference	0.99285	0.761
47DAP/reference	0.93449	0.149
52DAP/reference	0.85484	0.021
57DAP/reference	0.72153	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01615	0.758
17DAP/reference	1.06582	0.13
27DAP/reference	1.01048	0.834
39DAP/reference	1.05134	0.211
41DAP/reference	1.03294	0.674
42DAP/reference	1.02451	0.848
43DAP/reference	0.9974	0.796
47DAP/reference	0.89003	0.02
52DAP/reference	0.88344	0.18
57DAP/reference	1.01993	0.954

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16084	0.966
26DAP/20DAP	1.08127	0.818
34DAP/26DAP	0.99395	1
51DAP/34DAP	1.09444	0.314
52DAP/51DAP	0.99112	1
53DAP/52DAP	0.9727	0.882
55DAP/53DAP	1.11367	0.834
57DAP/55DAP	0.90107	0.568
62DAP/57DAP	1.07164	0.35
68DAP/62DAP	0.95631	0.722
68DAP/14DAP	1.13294	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37878	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.10239	0.058
Mature Green Tomato/Ripe Tomato	2.54621	0.095
Immature Eggplant/Mature Eggplant	0.54152	0.064
Ripe Pepper/Ripe Tomato	0.99273	1
Mature Eggplant/Ripe Tomato	5.97168	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91976	0.69
1-1-2/M82	0.89413	1
12-2/M82	1.13355	0.61
12-4/M82	1.04654	0.694
1-3/M82	N/A	N/A
2-1-1/M82	0.88916
2-1/M82	N/A	N/A
2-6/M82	0.96068	0.501
3-2/M82	1.0029	1
4-1-1/M82	1.02911	1
4-1/M82	0.95039	1
4-3-2/M82	0.95311	1
4-3/M82	0.73005
5-3/M82	0.93503	1
6-2/M82	N/A	N/A
6-3/M82	0.96917	0.982
7-1/M82	0.90217
7-2/M82	1.05261
9-3-2/M82	0.9816	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84165	0.321
IL2-6/WTpooled	1.25912	0.419
IL7-5/WTpooled	0.92176
IL7-3/WTpooled	1.10912	1
IL12-4/WTpooled	0.89333	0.71
IL1-4/WTpooled	0.90355	0.699
WT/WTpooled	0.87105	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	1.10881	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98257	1
DC3000/delta hrp 6h	1.03989	1
DC3000/delta hrp 12h	1.33506	1
DC3000/delta hrp 24h	0.9514	0.682

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99716	1
DC3000 delta B/DC3000 delta AB	1.02987	0.571

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12663	1
Exp 36h	0.8096	0.539
Exp 60h	0.78854	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97334	1
Var 0h	0.89539	0.421
Var 12h I row2-row1	1.08082	0.473
Var 12h NI row2-row1	1.00235	1
Var 36h I row2-row1	0.99466	1
Var 36h NI row2-row1	1.00252	1
Var 60h I row2-row1	1.15591	1
Var 60h NI row2-row1	1.0546	0.904
Time course 0hI-0hNI	1.06798	0.63
Time course 12hI-12hNI	0.97047	0.752
Time course 36hI-36hNI	0.83918	0.117
Time course 60hI-60hNI	1.10008	0.08

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)	0.73047	0.229
transgenic ySAMdc/azygous control (breaker)	0.8259	0.173
transgenic ySAMdc/azygous control (red)	0.9133	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14594	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12018	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61275	0.172
Manapal/WT (break)	0.9253	1
Manapal/WT (red)	0.79935	0.274