Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0881	0.961
27DAP/17DAP	1.1473	0.872
39DAP/27DAP	0.73516	0.286
41DAP/39DAP	1.21987	0.416
42DAP/41DAP	0.82403	1
43DAP/42DAP	0.92899	0.865
47DAP/43DAP	1.22127	0.542
52DAP/47DAP	1.05398	0.976
57DAP/52DAP	1.0382	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38183	0.05
17DAP/reference	0.83751	0.278
27DAP/reference	0.95105	0.349
39DAP/reference	0.79888	0.088
41DAP/reference	0.99151	0.814
42DAP/reference	0.95731	0.259
43DAP/reference	0.98309	0.785
47DAP/reference	0.93235	0.174
52DAP/reference	0.83482	0.047
57DAP/reference	0.98327	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58682
27DAP/17DAP	1.27658	0.69
39DAP/27DAP	0.898	0.821
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.13053	0.836
43DAP/42DAP	1.5269	0.212
47DAP/43DAP	0.68788	0.466
52DAP/47DAP	1.38637	0.324
57DAP/52DAP	0.94449	0.789
57DAP/7DAP	0.91636	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98098	0.55
17DAP/reference	0.84011	0.016
27DAP/reference	0.77058	0.01
39DAP/reference	0.79477	0.011
41DAP/reference	0.84788	0.111
42DAP/reference	0.59223	0.01
43DAP/reference	0.70789	0.03
47DAP/reference	0.87329	0.168
52DAP/reference	0.74251	0.021
57DAP/reference	0.78961	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29247	0.087
17DAP/reference	0.95169	0.378
27DAP/reference	1.033	1
39DAP/reference	0.816	0.083
41DAP/reference	0.95674	0.393
42DAP/reference	0.85439	0.321
43DAP/reference	1.04987	0.865
47DAP/reference	1.09615	0.426
52DAP/reference	0.77392	0.01
57DAP/reference	0.68626	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82841	0.034
17DAP/reference	0.92624	0.313
27DAP/reference	0.83182	0.039
39DAP/reference	0.84517	0.035
41DAP/reference	0.93403	0.119
42DAP/reference	0.86807	0.134
43DAP/reference	0.82459	0.021
47DAP/reference	0.87175	0.038
52DAP/reference	0.78428	0.103
57DAP/reference	1.09654	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99866	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.68468
51DAP/34DAP	0.78479	0.611
52DAP/51DAP	3.02553
53DAP/52DAP	0.66204	0.212
55DAP/53DAP	0.89051	0.686
57DAP/55DAP	0.94752	0.867
62DAP/57DAP	1.22357	0.868
68DAP/62DAP	1.19231	0.491
68DAP/14DAP	1.23081	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7501	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90368	0.591
Mature Green Tomato/Ripe Tomato	1.0465	1
Immature Eggplant/Mature Eggplant	0.54784	0.067
Ripe Pepper/Ripe Tomato	0.41758	0.224
Mature Eggplant/Ripe Tomato	0.90488	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.82251	0.605
1-1-2/M82	0.95574	1
12-2/M82	1.02763	1
12-4/M82	0.85691	0.619
1-3/M82	0.99085	1
2-1-1/M82	0.99765	1
2-1/M82	N/A	N/A
2-6/M82	1.0763	0.505
3-2/M82	0.76144	0.428
4-1-1/M82	0.93526	0.959
4-1/M82	1.06136	1
4-3-2/M82	0.97366
4-3/M82	0.93036	1
5-3/M82	0.99854	1
6-2/M82	0.841	0.473
6-3/M82	0.97764	1
7-1/M82	1.2389	1
7-2/M82	0.881	0.881
9-3-2/M82	0.87704	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83976	0.247
IL2-6/WTpooled	0.78324	1
IL7-5/WTpooled	0.74266	1
IL7-3/WTpooled	1.05045	1
IL12-4/WTpooled	0.87648	0.566
IL1-4/WTpooled	0.9839	1
WT/WTpooled	0.97743	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9605	1
DC3000/delta hrp 6h	1.15828	1
DC3000/delta hrp 12h	1.20482	1
DC3000/delta hrp 24h	1.06311	0.411

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08975	1
Exp 36h	1.98549	0.693
Exp 60h	1.01867	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.24641	0.318
transgenic ySAMdc/azygous control (breaker)	0.94664	0.49
transgenic ySAMdc/azygous control (red)	0.92052	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94968	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.45289	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57827	0.172
Manapal/WT (break)	0.78674	0.299
Manapal/WT (red)	0.58289	0.181