Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30643	0.615
27DAP/17DAP	1.15802	0.892
39DAP/27DAP	0.88864	0.537
41DAP/39DAP	1.15151	0.498
42DAP/41DAP	1.08235	0.877
43DAP/42DAP	1.0733	1
47DAP/43DAP	1.17842	0.321
52DAP/47DAP	0.94747	0.821
57DAP/52DAP	1.06938	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76942	0.062
17DAP/reference	1.17951	0.384
27DAP/reference	1.82916	0.011
39DAP/reference	1.4794	0.027
41DAP/reference	1.21575	0.05
42DAP/reference	1.24218	0.008
43DAP/reference	1.85081	0.007
47DAP/reference	3.53273	0.001
52DAP/reference	2.33467	0.007
57DAP/reference	2.09519	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99439	0.847
27DAP/17DAP	0.86508	0.748
39DAP/27DAP	0.92765	0.55
41DAP/39DAP	1.02592	1
42DAP/41DAP	0.94737	0.56
43DAP/42DAP	1.02922	0.699
47DAP/43DAP	0.99202	0.983
52DAP/47DAP	1.02198	0.986
57DAP/52DAP	1.02189	0.992
57DAP/7DAP	1.1524	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83199	0.115
17DAP/reference	0.87715	0.025
27DAP/reference	0.9606	0.283
39DAP/reference	1.13473	0.133
41DAP/reference	0.86156	0.09
42DAP/reference	0.92689	0.16
43DAP/reference	0.98211	0.502
47DAP/reference	1.47446	0.024
52DAP/reference	1.05953	0.636
57DAP/reference	1.05186	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78556	0.053
17DAP/reference	0.94478	0.357
27DAP/reference	1.13353	0.38
39DAP/reference	1.37628	0.063
41DAP/reference	0.89503	0.098
42DAP/reference	1.21103	0.202
43DAP/reference	1.24282	0.407
47DAP/reference	1.37061	0.01
52DAP/reference	1.09346	0.417
57DAP/reference	0.969	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66612	0.029
17DAP/reference	0.81059	0.281
27DAP/reference	0.82589	0.045
39DAP/reference	0.89273	0.024
41DAP/reference	0.89924	0.132
42DAP/reference	1.33859	0.018
43DAP/reference	1.51634	0.027
47DAP/reference	2.68536	0.007
52DAP/reference	1.98407	0.028
57DAP/reference	4.84402	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00577	1
26DAP/20DAP	1.15712	0.464
34DAP/26DAP	1.0259	1
51DAP/34DAP	1.2772	0.077
52DAP/51DAP	1.07589	0.588
53DAP/52DAP	1.02989	1
55DAP/53DAP	1.14207	0.681
57DAP/55DAP	0.91126	0.677
62DAP/57DAP	0.88599	0.681
68DAP/62DAP	0.83606	0.429
68DAP/14DAP	1.23824	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70943	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0508	0.666
Mature Green Tomato/Ripe Tomato	1.53855	0.149
Immature Eggplant/Mature Eggplant	1.26611	0.05
Ripe Pepper/Ripe Tomato	0.92478	1
Mature Eggplant/Ripe Tomato	0.47394	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12544	0.536
1-1-2/M82	0.84271	1
12-2/M82	1.14186	1
12-4/M82	0.94157	1
1-3/M82	1.38584	0.479
2-1-1/M82	1.41932	0.375
2-1/M82	0.91995	0.322
2-6/M82	1.05613	1
3-2/M82	N/A	N/A
4-1-1/M82	1.24568	0.998
4-1/M82	1.30273
4-3-2/M82	0.94932	1
4-3/M82	1.17442	1
5-3/M82	1.03725	1
6-2/M82	0.80504	0.497
6-3/M82	1.20112	1
7-1/M82	1.22464	0.992
7-2/M82	1.04216	0.282
9-3-2/M82	0.81347	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.79007
IL7-5/WTpooled	1.24205
IL7-3/WTpooled	0.83671	1
IL12-4/WTpooled	0.96173	1
IL1-4/WTpooled	1.15624	0.426
WT/WTpooled	0.78737	0.881

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	1.00027	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0308	0.921
DC3000/delta hrp 6h	0.97677	0.95
DC3000/delta hrp 12h	0.75074	1
DC3000/delta hrp 24h	1.17395	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24426	0.408
DC3000 delta B/DC3000 delta AB	1.1051	0.336

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88458	1
Exp 36h	0.9	0.749
Exp 60h	0.77883	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98235	1
Var 0h	0.76674	0.933
Var 12h I row2-row1	0.93744	0.627
Var 12h NI row2-row1	1.09453	1
Var 36h I row2-row1	1.20131	1
Var 36h NI row2-row1	1.17172	0.482
Var 60h I row2-row1	0.85457	0.439
Var 60h NI row2-row1	1.19418	0.904
Time course 0hI-0hNI	1.00997	1
Time course 12hI-12hNI	0.92251	0.309
Time course 36hI-36hNI	0.75052	0.04
Time course 60hI-60hNI	0.34698	0.005

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)	0.98678	0.862
transgenic ySAMdc/azygous control (breaker)	1.13781	1
transgenic ySAMdc/azygous control (red)	0.96988	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17592	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04731	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09009	1
Manapal/WT (break)	0.76825	1
Manapal/WT (red)	1.30809	0.133