Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.5.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06893	0.951
27DAP/17DAP	1.06792	1
39DAP/27DAP	0.85037	0.537
41DAP/39DAP	1.68327	0.37
42DAP/41DAP	1.01956	1
43DAP/42DAP	1.0093	0.937
47DAP/43DAP	0.92999	0.696
52DAP/47DAP	1.36864	0.605
57DAP/52DAP	0.96323	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05106	0.522
17DAP/reference	1.01738	0.565
27DAP/reference	0.99091	0.763
39DAP/reference	1.00361	0.903
41DAP/reference	1.07578	0.026
42DAP/reference	1.023	0.656
43DAP/reference	1.13986	0.015
47DAP/reference	0.92682	0.098
52DAP/reference	0.78663	0.033
57DAP/reference	0.73012	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95181	0.578
27DAP/17DAP	1.13917	0.822
39DAP/27DAP	1.0151	0.77
41DAP/39DAP	1.07423	0.79
42DAP/41DAP	1.02285	1
43DAP/42DAP	0.94564	0.447
47DAP/43DAP	0.94446	0.305
52DAP/47DAP	0.9886	0.93
57DAP/52DAP	1.01929	0.917
57DAP/7DAP	1.07006	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94664	0.445
17DAP/reference	0.8553	0.011
27DAP/reference	0.84664	0.01
39DAP/reference	0.86904	0.013
41DAP/reference	0.83808	0.018
42DAP/reference	0.90059	0.063
43DAP/reference	0.85317	0.032
47DAP/reference	0.93631	0.383
52DAP/reference	0.73666	0.02
57DAP/reference	0.77183	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20251	0.062
17DAP/reference	1.15785	0.104
27DAP/reference	0.96984	0.467
39DAP/reference	1.07768	0.588
41DAP/reference	0.96006	0.364
42DAP/reference	0.90729	0.081
43DAP/reference	1.21953	0.065
47DAP/reference	0.99191	0.643
52DAP/reference	1.11609	0.135
57DAP/reference	1.40772	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95509	0.422
17DAP/reference	1.02617	0.944
27DAP/reference	0.80715	0.049
39DAP/reference	0.82261	0.043
41DAP/reference	0.78442	0.096
42DAP/reference	0.74326	0.087
43DAP/reference	0.73795	0.102
47DAP/reference	0.99682	0.61
52DAP/reference	0.97426	0.718
57DAP/reference	1.83531	0.572

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0201	0.966
26DAP/20DAP	0.9369	0.512
34DAP/26DAP	0.90258	0.675
51DAP/34DAP	0.94799	0.631
52DAP/51DAP	0.96775	1
53DAP/52DAP	1.01728	1
55DAP/53DAP	0.97929	0.852
57DAP/55DAP	1.20747	0.249
62DAP/57DAP	1.65995
68DAP/62DAP	0.98974	0.834
68DAP/14DAP	0.62306	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07073	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.01182	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02393	1
1-1-2/M82	0.89862	0.958
12-2/M82	1.08089	1
12-4/M82	1.03539	1
1-3/M82	0.86691	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.25284
2-6/M82	1.17809	0.695
3-2/M82	0.93967	1
4-1-1/M82	0.98946	1
4-1/M82	1.03155	1
4-3-2/M82	0.84919	1
4-3/M82	0.85872	1
5-3/M82	0.95814	1
6-2/M82	0.89729	1
6-3/M82	1.0528
7-1/M82	1.04765	1
7-2/M82	0.93011	1
9-3-2/M82	0.85564	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87509	1
IL12-4/WTpooled	0.85539
IL1-4/WTpooled	0.99441	1
WT/WTpooled	1.05999	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	1.28275	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.84458	1
DC3000/delta hrp 6h	0.16464
DC3000/delta hrp 12h	1.46971	1
DC3000/delta hrp 24h	1.00965	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.7501	0.027
DC3000 delta B/DC3000 delta AB	0.95531	0.674

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67777	0.245
Exp 36h	N/A	N/A
Exp 60h	0.47693	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02182	1
Var 0h	0.93042	0.933
Var 12h I row2-row1	1.00643	1
Var 12h NI row2-row1	1.19727	0.649
Var 36h I row2-row1	1.57176	0.41
Var 36h NI row2-row1	0.63457	0.478
Var 60h I row2-row1	1.54552	0.543
Var 60h NI row2-row1	0.83928	0.431
Time course 0hI-0hNI	1.04723	0.852
Time course 12hI-12hNI	1.0874	0.803
Time course 36hI-36hNI	1.74726	0.01
Time course 60hI-60hNI	1.53467	0.096

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.91455	0.251
transgenic ySAMdc/azygous control (red)	1.03699	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01142	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.17828	0.381
Manapal/WT (red)	N/A	N/A