Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48925	0.997
27DAP/17DAP	1.58649	0.592
39DAP/27DAP	0.94991	0.67
41DAP/39DAP	1.17944	0.549
42DAP/41DAP	1.60747	0.654
43DAP/42DAP	0.90275	0.801
47DAP/43DAP	0.65922	0.099
52DAP/47DAP	1.52045	0.434
57DAP/52DAP	0.7472	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27788	0.021
17DAP/reference	1.1143	0.294
27DAP/reference	1.24404	0.051
39DAP/reference	0.95578	0.513
41DAP/reference	1.09575	0.451
42DAP/reference	1.675	0.001
43DAP/reference	1.05377	0.34
47DAP/reference	0.94804	0.242
52DAP/reference	0.68866	0.021
57DAP/reference	0.8236	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03598	0.782
27DAP/17DAP	1.0662	0.942
39DAP/27DAP	1.44396	0.112
41DAP/39DAP	1.61054	0.011
42DAP/41DAP	0.6105	0.026
43DAP/42DAP	1.47449	0.019
47DAP/43DAP	1.07534	0.837
52DAP/47DAP	1.14632	0.71
57DAP/52DAP	2.39431	0.029
57DAP/7DAP	2.37526	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1004	0.427
17DAP/reference	1.12777	0.102
27DAP/reference	1.01568	0.974
39DAP/reference	1.12488	0.081
41DAP/reference	1.05135	0.723
42DAP/reference	1.08736	0.405
43DAP/reference	1.67976	0.007
47DAP/reference	0.99278	1
52DAP/reference	1.3411	0.024
57DAP/reference	1.604	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02545	0.915
17DAP/reference	1.52624	0.008
27DAP/reference	0.97273	0.519
39DAP/reference	1.13855	0.124
41DAP/reference	1.50674	0.017
42DAP/reference	1.12093	0.166
43DAP/reference	1.16237	0.38
47DAP/reference	1.18882	0.029
52DAP/reference	0.96002	0.469
57DAP/reference	1.15327	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87707	0.034
17DAP/reference	1.07556	0.362
27DAP/reference	1.42009	0.018
39DAP/reference	1.27322	0.024
41DAP/reference	1.23956	0.069
42DAP/reference	1.06702	0.54
43DAP/reference	1.2654	0.071
47DAP/reference	1.13933	0.265
52DAP/reference	1.68049	0.054
57DAP/reference	1.04262	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7082	0.068
26DAP/20DAP	0.77938
34DAP/26DAP	0.67104	0.138
51DAP/34DAP	0.95794	0.791
52DAP/51DAP	1.49635	0.689
53DAP/52DAP	0.8065	0.684
55DAP/53DAP	1.47487	0.399
57DAP/55DAP	1.65731	0.986
62DAP/57DAP	1.40217	0.024
68DAP/62DAP	0.48391
68DAP/14DAP	1.91246

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.10169	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.29858	0.036
Immature Eggplant/Mature Eggplant	1.62789	0.05
Ripe Pepper/Ripe Tomato	0.15308	0.224
Mature Eggplant/Ripe Tomato	0.48945	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94646	0.934
1-1-2/M82	1.13207	1
12-2/M82	1.38631	0.421
12-4/M82	0.9779	1
1-3/M82	1.32634	1
2-1-1/M82	1.20081	1
2-1/M82	0.86146	0.74
2-6/M82	2.00514	0.452
3-2/M82	1.1052
4-1-1/M82	1.31996	1
4-1/M82	1.58974	0.295
4-3-2/M82	1.73794	0.262
4-3/M82	1.40724	1
5-3/M82	0.55877	0.395
6-2/M82	2.77766	0.219
6-3/M82	0.89434	1
7-1/M82	1.00471	1
7-2/M82	1.20636	0.385
9-3-2/M82	1.80995	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.28759
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.67394
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.78776	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	1.4201	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00346	1
DC3000/delta hrp 6h	1.17146	1
DC3000/delta hrp 12h	0.84639	1
DC3000/delta hrp 24h	1.02158	0.728

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	1.63864

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26854	0.228
Exp 36h	1.40282	0.349
Exp 60h	1.46768	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05666	1
Var 0h	1.11881	0.782
Var 12h I row2-row1	1.12136	0.222
Var 12h NI row2-row1	0.65605	0.82
Var 36h I row2-row1	1.02399	1
Var 36h NI row2-row1	0.93313	0.743
Var 60h I row2-row1	0.8576	0.439
Var 60h NI row2-row1	0.8833	0.63
Time course 0hI-0hNI	1.10855	0.799
Time course 12hI-12hNI	1.60117	0.01
Time course 36hI-36hNI	2.48954	0.005
Time course 60hI-60hNI	4.20884	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)	1.32006	0.384
transgenic ySAMdc/azygous control (breaker)	0.67368	0.15
transgenic ySAMdc/azygous control (red)	1.20621	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03955	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.31478	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76106	0.172
Manapal/WT (break)	0.51749	0.333
Manapal/WT (red)	0.45454	0.181