Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.15.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7658	0.2
27DAP/17DAP	0.98751	0.963
39DAP/27DAP	0.82956	0.462
41DAP/39DAP	1.1607	0.728
42DAP/41DAP	1.06199	1
43DAP/42DAP	0.89898	0.799
47DAP/43DAP	0.89128	0.609
52DAP/47DAP	1.13819	0.969
57DAP/52DAP	1.1996	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05843	0.17
17DAP/reference	1.05039	0.055
27DAP/reference	1.02951	0.487
39DAP/reference	1.0089	0.842
41DAP/reference	1.00716	1
42DAP/reference	0.97625	0.225
43DAP/reference	0.99911	0.924
47DAP/reference	0.94955	0.046
52DAP/reference	0.90641	0.147
57DAP/reference	0.97305	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99003	0.782
27DAP/17DAP	0.97785	0.854
39DAP/27DAP	0.98265	0.821
41DAP/39DAP	1.0717	0.656
42DAP/41DAP	1.01026	1
43DAP/42DAP	1.02637	0.585
47DAP/43DAP	1.00132	1
52DAP/47DAP	0.97482	0.837
57DAP/52DAP	0.99288	0.841
57DAP/7DAP	0.95113	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73297	0.07
17DAP/reference	0.82926	0.011
27DAP/reference	0.73971	0.01
39DAP/reference	0.73085	0.011
41DAP/reference	0.81804	0.014
42DAP/reference	0.77768	0.024
43DAP/reference	0.77918	0.023
47DAP/reference	0.87705	0.168
52DAP/reference	0.67615	0.012
57DAP/reference	0.75295	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03926	0.55
17DAP/reference	0.97275	0.434
27DAP/reference	0.93511	0.22
39DAP/reference	0.96019	0.227
41DAP/reference	0.90804	0.061
42DAP/reference	0.91719	0.15
43DAP/reference	0.9453	0.236
47DAP/reference	0.96338	0.102
52DAP/reference	0.92932	0.06
57DAP/reference	0.95679	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79146	0.063
17DAP/reference	0.96384	0.615
27DAP/reference	0.73091	0.051
39DAP/reference	0.72516	0.018
41DAP/reference	0.81392	0.025
42DAP/reference	0.82213	0.028
43DAP/reference	0.85102	0.057
47DAP/reference	1.04499	0.424
52DAP/reference	0.683	0.121
57DAP/reference	0.80524	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98478	1
26DAP/20DAP	0.94999	1
34DAP/26DAP	1.02115	1
51DAP/34DAP	1.022	0.854
52DAP/51DAP	0.99701	1
53DAP/52DAP	1.00212	0.99
55DAP/53DAP	0.93462	0.282
57DAP/55DAP	0.74427	0.37
62DAP/57DAP	1.1597	0.833
68DAP/62DAP	1.32162	0.5
68DAP/14DAP	1.01683	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93635	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.169	0.176
Mature Green Tomato/Ripe Tomato	1.01479	0.66
Immature Eggplant/Mature Eggplant	1.94425	0.05
Ripe Pepper/Ripe Tomato	0.77071	1
Mature Eggplant/Ripe Tomato	3.25776	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09377	0.877
1-1-2/M82	1.03529	1
12-2/M82	0.96171	0.955
12-4/M82	1.01091	1
1-3/M82	0.83883	0.501
2-1-1/M82	0.9739	1
2-1/M82	1.23235	1
2-6/M82	0.96187	1
3-2/M82	1.05892	0.717
4-1-1/M82	0.99447	1
4-1/M82	0.7712	0.867
4-3-2/M82	0.93008	1
4-3/M82	0.99697	0.72
5-3/M82	1.00979	1
6-2/M82	1.0602	1
6-3/M82	0.96271	1
7-1/M82	0.97037	0.803
7-2/M82	0.96565	0.881
9-3-2/M82	0.90574	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17033	0.365
IL2-6/WTpooled	0.89075	1
IL7-5/WTpooled	1.21221	0.635
IL7-3/WTpooled	1.19788	0.362
IL12-4/WTpooled	1.20153	0.441
IL1-4/WTpooled	1.20722	1
WT/WTpooled	1.07633	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	0.64594	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96909	1
DC3000/delta hrp 6h	1.02251	1
DC3000/delta hrp 12h	0.97059	1
DC3000/delta hrp 24h	0.98089	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94771	0.724
DC3000 delta B/DC3000 delta AB	1.01904	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95211	1
Exp 36h	1.34923	0.693
Exp 60h	1.15784	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99768	1
Var 0h	0.76588	0.933
Var 12h I row2-row1	1.09501	0.224
Var 12h NI row2-row1	0.90812	0.627
Var 36h I row2-row1	0.92271	1
Var 36h NI row2-row1	0.94987	0.469
Var 60h I row2-row1	1.13163	0.562
Var 60h NI row2-row1	1.13147	0.904
Time course 0hI-0hNI	0.94334	0.535
Time course 12hI-12hNI	0.96946	0.795
Time course 36hI-36hNI	0.80212	0.06
Time course 60hI-60hNI	0.98671	1

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)	1.07005	0.318
transgenic ySAMdc/azygous control (breaker)	1.39217	0.172
transgenic ySAMdc/azygous control (red)	1.06386	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9839	0.16

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86397	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99229	1
Manapal/WT (break)	0.87067	1
Manapal/WT (red)	0.78415	0.181