Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.3.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86168	0.364
27DAP/17DAP	2.31765	0.781
39DAP/27DAP	1.33019	0.296
41DAP/39DAP	1.4628	0.603
42DAP/41DAP	1.10031	0.978
43DAP/42DAP	1.28432	0.593
47DAP/43DAP	0.80198	0.41
52DAP/47DAP	0.88163	0.685
57DAP/52DAP	0.91476	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7311	0.041
17DAP/reference	0.68251	0.016
27DAP/reference	0.79709	0.029
39DAP/reference	0.96451	0.734
41DAP/reference	0.55822	0.011
42DAP/reference	0.7127	0.001
43DAP/reference	0.86413
47DAP/reference	0.7036	0.032
52DAP/reference	0.99547	0.689
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10248	0.762
27DAP/17DAP	1.01605	0.943
39DAP/27DAP	1.70433	0.057
41DAP/39DAP	0.49884	0.015
42DAP/41DAP	1.27853	0.514
43DAP/42DAP	2.51108	0.013
47DAP/43DAP	0.90156	0.286
52DAP/47DAP	0.7783	0.119
57DAP/52DAP	1.02018	1
57DAP/7DAP	1.36652	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27311	0.205
17DAP/reference	1.47112	0.018
27DAP/reference	1.14704	0.371
39DAP/reference	1.29028	0.05
41DAP/reference	1.43491	0.034
42DAP/reference	1.1523	0.889
43DAP/reference	1.36989	0.02
47DAP/reference	1.07032	0.421
52DAP/reference	1.18817	0.098
57DAP/reference	1.33536	0.049

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88966	0.412
17DAP/reference	0.66852	0.009
27DAP/reference	0.94537	0.423
39DAP/reference	1.09953	0.891
41DAP/reference	1.02154	0.735
42DAP/reference	1.0056	0.655
43DAP/reference	0.64294	0.01
47DAP/reference	0.83093	0.011
52DAP/reference	0.90715	0.121
57DAP/reference	0.65935	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25768	0.303
17DAP/reference	0.99383	0.681
27DAP/reference	1.11312	0.575
39DAP/reference	1.12844	0.466
41DAP/reference	1.11528	0.734
42DAP/reference	1.19989	0.246
43DAP/reference	1.34539	0.145
47DAP/reference	0.98017	0.525
52DAP/reference	1.44495	0.186
57DAP/reference	1.69572	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22111	0.966
26DAP/20DAP	1.30372	0.338
34DAP/26DAP	1.12106	1
51DAP/34DAP	1.75278
52DAP/51DAP	0.87422	1
53DAP/52DAP	1.23766	0.944
55DAP/53DAP	0.66793	0.225
57DAP/55DAP	0.59432
62DAP/57DAP	1.26975
68DAP/62DAP	2.85477	0.01
68DAP/14DAP	1.43093	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40765	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.29927	0.045
Immature Eggplant/Mature Eggplant	7.02364
Ripe Pepper/Ripe Tomato	0.42705	0.224
Mature Eggplant/Ripe Tomato	0.29864	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.32022	0.526
1-1-2/M82	1.14481	1
12-2/M82	1.23933
12-4/M82	1.12072	1
1-3/M82	1.61168	0.479
2-1-1/M82	1.06102	1
2-1/M82	1.16428
2-6/M82	1.50487
3-2/M82	1.02924
4-1-1/M82	1.26359
4-1/M82	N/A	N/A
4-3-2/M82	1.2082	0.262
4-3/M82	1.70047	0.268
5-3/M82	0.75703	0.447
6-2/M82	N/A	N/A
6-3/M82	1.14527	1
7-1/M82	1.0787
7-2/M82	1.51403
9-3-2/M82	1.81035	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73857	0.321
IL2-6/WTpooled	1.40379	0.531
IL7-5/WTpooled	0.70833	1
IL7-3/WTpooled	0.88245	1
IL12-4/WTpooled	1.0916	0.785
IL1-4/WTpooled	0.87853	0.562
WT/WTpooled	1.06172	0.999

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	1.4059	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18404	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.82805
DC3000/delta hrp 24h	1.19391	0.308

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	N/A	N/A
Exp 36h	1.62049	0.409
Exp 60h	1.63002	0.563

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	1.18168	0.421
Var 12h I row2-row1	0.78553	0.77
Var 12h NI row2-row1	0.80965	0.713
Var 36h I row2-row1	1.55917	1
Var 36h NI row2-row1	1.21947	0.253
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.88391	0.63
Time course 0hI-0hNI	0.95104	0.906
Time course 12hI-12hNI	1.03856	0.698
Time course 36hI-36hNI	0.79392	0.036
Time course 60hI-60hNI	0.2749	0.015

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)	0.95918	0.409
transgenic ySAMdc/azygous control (breaker)	0.87977	0.251
transgenic ySAMdc/azygous control (red)	1.12874	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04078	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78925	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97893	1
Manapal/WT (break)	1.1194	1
Manapal/WT (red)	0.70771	0.181