Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44849	0.09
27DAP/17DAP	0.85767	0.478
39DAP/27DAP	0.80026	0.449
41DAP/39DAP	1.08668	0.408
42DAP/41DAP	0.9345	0.774
43DAP/42DAP	1.01534	1
47DAP/43DAP	1.01903	0.659
52DAP/47DAP	0.99668	0.932
57DAP/52DAP	1.0158	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06801	0.522
17DAP/reference	1.00829	0.874
27DAP/reference	1.11667	0.15
39DAP/reference	1.16245	0.019
41DAP/reference	1.01904	0.667
42DAP/reference	1.39483	0.338
43DAP/reference	0.99152	0.84
47DAP/reference	0.97537	0.366
52DAP/reference	1.00382	0.791
57DAP/reference	1.24058	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08873	0.278
27DAP/17DAP	0.95099	0.782
39DAP/27DAP	0.98277	0.887
41DAP/39DAP	1.05239	0.895
42DAP/41DAP	0.92595	0.407
43DAP/42DAP	1.0469	0.585
47DAP/43DAP	1.03689	0.744
52DAP/47DAP	1.03289	0.883
57DAP/52DAP	0.91702	0.317
57DAP/7DAP	0.83882	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88741	0.104
17DAP/reference	1.12851	0.035
27DAP/reference	1.29041	0.01
39DAP/reference	1.11492	0.175
41DAP/reference	1.03079	0.864
42DAP/reference	1.13761	0.1
43DAP/reference	1.0961	0.273
47DAP/reference	0.97251	0.671
52DAP/reference	1.21012	0.036
57DAP/reference	1.25066	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96489	0.607
17DAP/reference	1.34058	0.015
27DAP/reference	1.21193	0.092
39DAP/reference	1.11691	0.255
41DAP/reference	1.08995	0.502
42DAP/reference	1.22996	0.025
43DAP/reference	1.36244	0.02
47DAP/reference	1.20306	0.311
52DAP/reference	1.13657	0.032
57DAP/reference	0.96739	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97416	0.526
17DAP/reference	1.19549	0.11
27DAP/reference	1.65104	0.013
39DAP/reference	1.29819	0.023
41DAP/reference	1.24012	0.009
42DAP/reference	1.15254	0.042
43DAP/reference	1.1466	0.198
47DAP/reference	1.01012	0.667
52DAP/reference	0.95629	0.562
57DAP/reference	1.39525	0.069

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92748	1
26DAP/20DAP	0.90481	1
34DAP/26DAP	1.07277	0.819
51DAP/34DAP	1.04612	0.775
52DAP/51DAP	0.93875	1
53DAP/52DAP	0.94887	0.772
55DAP/53DAP	0.94587	0.592
57DAP/55DAP	1.04385	0.881
62DAP/57DAP	0.85361	0.681
68DAP/62DAP	1.02266	1
68DAP/14DAP	1.08615	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79974	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.08697	0.058
Mature Green Tomato/Ripe Tomato	2.3995	0.015
Immature Eggplant/Mature Eggplant	0.51061	0.057
Ripe Pepper/Ripe Tomato	0.50843	0.224
Mature Eggplant/Ripe Tomato	0.80897	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97919	0.934
1-1-2/M82	0.98093
12-2/M82	0.67748
12-4/M82	0.96569	1
1-3/M82	1.02033	1
2-1-1/M82	0.59908
2-1/M82	0.56433
2-6/M82	0.99195	1
3-2/M82	N/A	N/A
4-1-1/M82	1.53874
4-1/M82	1.09885
4-3-2/M82	1.22851
4-3/M82	1.25673	0.268
5-3/M82	0.93167	0.642
6-2/M82	N/A	N/A
6-3/M82	1.05473
7-1/M82	1.06207	1
7-2/M82	0.95707	0.881
9-3-2/M82	0.91405

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.80167	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01321	1
IL12-4/WTpooled	1.07818	0.624
IL1-4/WTpooled	0.96908
WT/WTpooled	0.96022	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	0.90981	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05709	0.894
DC3000/delta hrp 6h	1.04701	1
DC3000/delta hrp 12h	0.95147	1
DC3000/delta hrp 24h	0.84264	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08384	0.515
DC3000 delta B/DC3000 delta AB	1.08355	0.462

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07395	1
Exp 36h	0.80879	0.623
Exp 60h	0.75063	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00939	1
Var 0h	1.27837	0.594
Var 12h I row2-row1	0.87187	0.39
Var 12h NI row2-row1	0.95366	0.546
Var 36h I row2-row1	1.02317	1
Var 36h NI row2-row1	1.24	1
Var 60h I row2-row1	1.15698	0.562
Var 60h NI row2-row1	1.05448	0.904
Time course 0hI-0hNI	1.00421	1
Time course 12hI-12hNI	0.93852	0.436
Time course 36hI-36hNI	0.88282	0.132
Time course 60hI-60hNI	0.2983	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)	1.17967	0.321
transgenic ySAMdc/azygous control (breaker)	0.85524	0.251
transgenic ySAMdc/azygous control (red)	1.00197	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97723	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.97656	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.06613	0.087
Manapal/WT (break)	1.64839	0.183
Manapal/WT (red)	2.44784	0.126