Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05842	0.739
27DAP/17DAP	1.09419	0.859
39DAP/27DAP	1.01686	1
41DAP/39DAP	1.52584	0.209
42DAP/41DAP	1.15749	0.877
43DAP/42DAP	1.01894	0.945
47DAP/43DAP	1.07095	0.842
52DAP/47DAP	1.04165	0.994
57DAP/52DAP	1.01675	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89423	0.121
17DAP/reference	1.02964	0.492
27DAP/reference	0.98933	0.725
39DAP/reference	1.03034	0.453
41DAP/reference	1.13	0.133
42DAP/reference	1.01151	1
43DAP/reference	0.98865	0.785
47DAP/reference	0.85831	0.004
52DAP/reference	0.83226	0.055
57DAP/reference	0.83673	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99219	0.801
27DAP/17DAP	0.98125	0.878
39DAP/27DAP	1.15582	0.253
41DAP/39DAP	1.04905	0.705
42DAP/41DAP	0.95291	0.589
43DAP/42DAP	0.98728	0.854
47DAP/43DAP	1.01956	0.939
52DAP/47DAP	1.0164	0.945
57DAP/52DAP	1.02662	0.885
57DAP/7DAP	1.02162	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88751	0.138
17DAP/reference	0.73643	0.011
27DAP/reference	0.72763	0.01
39DAP/reference	0.86605	0.049
41DAP/reference	0.8397	0.046
42DAP/reference	0.79389	0.058
43DAP/reference	0.93413	0.031
47DAP/reference	0.75852	0.04
52DAP/reference	0.92877	0.057
57DAP/reference	0.96928	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07108	0.397
17DAP/reference	1.0157	0.851
27DAP/reference	0.91822	0.22
39DAP/reference	0.75756	0.013
41DAP/reference	0.85133	0.064
42DAP/reference	0.8819	0.061
43DAP/reference	1.06877	0.697
47DAP/reference	0.96949	0.4
52DAP/reference	0.97119	0.28
57DAP/reference	1.13221	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83966	0.135
17DAP/reference	0.94427	0.477
27DAP/reference	0.782	0.038
39DAP/reference	0.78743	0.019
41DAP/reference	0.81188	0.026
42DAP/reference	0.66694	0.028
43DAP/reference	0.76062	0.081
47DAP/reference	0.97308	0.509
52DAP/reference	0.75674	0.163
57DAP/reference	0.52479	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99368	1
26DAP/20DAP	0.93307	0.512
34DAP/26DAP	1.05275	0.819
51DAP/34DAP	0.98928	0.911
52DAP/51DAP	0.98927	1
53DAP/52DAP	1.04991	0.83
55DAP/53DAP	0.8842	0.389
57DAP/55DAP	1.18719	0.274
62DAP/57DAP	0.66636	0.871
68DAP/62DAP	0.88893	0.834
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10622	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.91689	0.522
Immature Eggplant/Mature Eggplant	0.6386	0.071
Ripe Pepper/Ripe Tomato	0.17768
Mature Eggplant/Ripe Tomato	2.09199	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.28898	0.473
1-1-2/M82	0.96952	1
12-2/M82	1.05268	1
12-4/M82	0.99598	1
1-3/M82	0.90815	0.501
2-1-1/M82	1.20793	0.689
2-1/M82	1.61893	1
2-6/M82	1.07361	0.594
3-2/M82	1.0043	1
4-1-1/M82	1.05587	1
4-1/M82	0.97874	1
4-3-2/M82	0.84503	1
4-3/M82	1.05706	1
5-3/M82	0.95126	1
6-2/M82	0.94536	1
6-3/M82	0.98228	1
7-1/M82	1.11822	0.992
7-2/M82	0.99365	1
9-3-2/M82	0.90687	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87464
IL2-6/WTpooled	1.09669	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.20739	1
IL12-4/WTpooled	0.89354	0.71
IL1-4/WTpooled	1.03029	1
WT/WTpooled	1.03289	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	0.93113	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00156	1
DC3000/delta hrp 6h	0.9132	0.95
DC3000/delta hrp 12h	1.07421	1
DC3000/delta hrp 24h	0.94299	0.575

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13017	0.06
DC3000 delta B/DC3000 delta AB	1.07327	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.61714	0.328
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	1.01475	1
Var 0h	0.96969	1
Var 12h I row2-row1	1.21738	0.228
Var 12h NI row2-row1	0.98577	0.906
Var 36h I row2-row1	1.09945	1
Var 36h NI row2-row1	0.89218	0.549
Var 60h I row2-row1	1.18909	1
Var 60h NI row2-row1	1.14953	0.904
Time course 0hI-0hNI	1.05641	0.867
Time course 12hI-12hNI	1.02946	0.818
Time course 36hI-36hNI	1.15448	0.014
Time course 60hI-60hNI	1.58469	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)	1.13553	0.286
transgenic ySAMdc/azygous control (breaker)	1.20819	0.162
transgenic ySAMdc/azygous control (red)	1.00563	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02918	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22161	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99218	1
Manapal/WT (break)	1.1667	0.381
Manapal/WT (red)	1.31081	0.142