Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07525	0.827
27DAP/17DAP	0.74921	0.298
39DAP/27DAP	0.95515	0.67
41DAP/39DAP	0.78892	0.196
42DAP/41DAP	0.76682	0.774
43DAP/42DAP	0.83864	0.589
47DAP/43DAP	0.93465	0.746
52DAP/47DAP	1.16915	0.69
57DAP/52DAP	0.95149	0.899

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14221	0.241
17DAP/reference	1.0056	1
27DAP/reference	1.00526	0.867
39DAP/reference	1.04774	0.311
41DAP/reference	0.86527	0.085
42DAP/reference	0.94145	0.025
43DAP/reference	0.98757	0.82
47DAP/reference	0.91188	0.098
52DAP/reference	0.83686	0.135
57DAP/reference	0.99005	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16162	0.099
27DAP/17DAP	1.04338	0.9
39DAP/27DAP	0.84732	0.067
41DAP/39DAP	1.18858	0.393
42DAP/41DAP	0.88886	0.218
43DAP/42DAP	0.94517	0.522
47DAP/43DAP	0.97352	0.815
52DAP/47DAP	1.07096	0.734
57DAP/52DAP	0.97081	0.601
57DAP/7DAP	0.96668	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52472	0.056
17DAP/reference	1.42166	0.092
27DAP/reference	1.13521	0.453
39DAP/reference	0.94345	0.307
41DAP/reference	1.05823	0.637
42DAP/reference	1.11031	0.308
43DAP/reference	1.23553	0.132
47DAP/reference	1.16385	0.229
52DAP/reference	1.32474	0.113
57DAP/reference	1.23167	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19708	0.084
17DAP/reference	1.25444	0.011
27DAP/reference	1.04816	0.888
39DAP/reference	0.97789	0.469
41DAP/reference	0.99547	0.601
42DAP/reference	0.93719	0.189
43DAP/reference	0.83987	0.068
47DAP/reference	1.05393	0.212
52DAP/reference	0.99911	0.713
57DAP/reference	1.0109	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17202	0.158
17DAP/reference	1.27352	0.148
27DAP/reference	1.53027	0.051
39DAP/reference	1.20564	0.175
41DAP/reference	1.05405	0.734
42DAP/reference	1.07384	0.692
43DAP/reference	1.04546	0.894
47DAP/reference	0.91442	0.168
52DAP/reference	0.95963	0.529
57DAP/reference	0.88936	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00302	1
26DAP/20DAP	0.91634	1
34DAP/26DAP	1.01122	1
51DAP/34DAP	0.84902	0.246
52DAP/51DAP	1.13257	0.099
53DAP/52DAP	1.05144	0.83
55DAP/53DAP	1.09891	0.79
57DAP/55DAP	1.19282	0.364
62DAP/57DAP	1.29086	0.678
68DAP/62DAP	1.47085	0.664
68DAP/14DAP	0.66596	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33724	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.26095	0.058
Mature Green Tomato/Ripe Tomato	2.45488	0.015
Immature Eggplant/Mature Eggplant	0.691	0.081
Ripe Pepper/Ripe Tomato	0.64029	0.224
Mature Eggplant/Ripe Tomato	2.85181	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98681	0.961
1-1-2/M82	0.9607	1
12-2/M82	1.03081	1
12-4/M82	0.92339	1
1-3/M82	1.00367	1
2-1-1/M82	1.10622	0.764
2-1/M82	1.02825	1
2-6/M82	1.11605	0.594
3-2/M82	1.03001	1
4-1-1/M82	0.93064	1
4-1/M82	0.9994	1
4-3-2/M82	1.13186	1
4-3/M82	1.07264	1
5-3/M82	1.03044	1
6-2/M82	0.97635	1
6-3/M82	0.98589	1
7-1/M82	0.94239	0.803
7-2/M82	1.01045	1
9-3-2/M82	0.89087	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96555	1
IL2-6/WTpooled	1.15785	0.531
IL7-5/WTpooled	1.44442
IL7-3/WTpooled	0.74411	0.31
IL12-4/WTpooled	1.06146	0.891
IL1-4/WTpooled	0.81125	0.699
WT/WTpooled	0.99908	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	0.82291	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03944	0.921
DC3000/delta hrp 6h	1.09524	1
DC3000/delta hrp 12h	0.94985	1
DC3000/delta hrp 24h	1.03757	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93622	0.485
DC3000 delta B/DC3000 delta AB	0.87853	0.106

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91499	1
Exp 36h	1.34612	1
Exp 60h	0.93832	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98646	1
Var 0h	0.35895	1
Var 12h I row2-row1	0.91296	0.39
Var 12h NI row2-row1	0.93961	0.627
Var 36h I row2-row1	0.99511	1
Var 36h NI row2-row1	1.15359	0.276
Var 60h I row2-row1	1.18656	0.562
Var 60h NI row2-row1	1.04906	0.904
Time course 0hI-0hNI	1.00657	1
Time course 12hI-12hNI	0.94838	0.454
Time course 36hI-36hNI	0.91939	0.127
Time course 60hI-60hNI	0.46982	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)	1.07338	0.654
transgenic ySAMdc/azygous control (breaker)	0.40958	0.122
transgenic ySAMdc/azygous control (red)	1.02682	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98875	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.36945	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08401	0.14
Manapal/WT (break)	1.04388	1
Manapal/WT (red)	1.01655	0.863