Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19553	0.656
27DAP/17DAP	1.23014	0.793
39DAP/27DAP	1.1186	0.759
41DAP/39DAP	0.99053	0.852
42DAP/41DAP	0.94707	1
43DAP/42DAP	0.92866	0.829
47DAP/43DAP	1.25547	0.442
52DAP/47DAP	1.14887	0.801
57DAP/52DAP	1.21295	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82949	0.055
17DAP/reference	1.06343	0.148
27DAP/reference	0.99029	0.763
39DAP/reference	1.02293	0.639
41DAP/reference	1.12664	0.029
42DAP/reference	0.8509	0.003
43DAP/reference	1.00748	1
47DAP/reference	0.94771	0.106
52DAP/reference	0.84147	0.128
57DAP/reference	0.84977	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22955	0.29
27DAP/17DAP	0.99988	0.969
39DAP/27DAP	1.23946	0.158
41DAP/39DAP	1.12101	0.876
42DAP/41DAP	1.14216	0.106
43DAP/42DAP	0.95497	0.709
47DAP/43DAP	1.02844	0.973
52DAP/47DAP	1.03232	0.956
57DAP/52DAP	1.1218	0.462
57DAP/7DAP	1.22251	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89221	0.138
17DAP/reference	0.89079	0.011
27DAP/reference	0.84386	0.01
39DAP/reference	0.93069	0.095
41DAP/reference	0.90055	0.06
42DAP/reference	0.89676	0.029
43DAP/reference	0.95535	0.279
47DAP/reference	0.9575	0.383
52DAP/reference	0.97974	0.477
57DAP/reference	0.97796	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91533	0.353
17DAP/reference	0.85924	0.072
27DAP/reference	0.88336	0.093
39DAP/reference	0.86394	0.122
41DAP/reference	0.81711	0.067
42DAP/reference	0.83201	0.016
43DAP/reference	0.95429	0.507
47DAP/reference	0.87308	0.11
52DAP/reference	0.8045	0.203
57DAP/reference	1.12754	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87061	0.045
17DAP/reference	0.89801	0.389
27DAP/reference	0.89349	0.027
39DAP/reference	0.84485	0.008
41DAP/reference	0.90423	0.05
42DAP/reference	0.78478	0.087
43DAP/reference	0.784	0.052
47DAP/reference	0.9377	0.231
52DAP/reference	0.8952	0.268
57DAP/reference	0.67941	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99717	1
26DAP/20DAP	1.01081	1
34DAP/26DAP	1.07894	1
51DAP/34DAP	1.36661	0.047
52DAP/51DAP	0.78934	0.151
53DAP/52DAP	1.23826	0.092
55DAP/53DAP	0.95783	0.698
57DAP/55DAP	1.18269	0.525
62DAP/57DAP	1.01647	1
68DAP/62DAP	1.28773	0.345
68DAP/14DAP	0.93354	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04531	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88872	0.481
Mature Green Tomato/Ripe Tomato	0.94634	0.569
Immature Eggplant/Mature Eggplant	2.18241	0.05
Ripe Pepper/Ripe Tomato	0.85499	0.293
Mature Eggplant/Ripe Tomato	0.42816	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.911	0.944
1-1-2/M82	1.09713	1
12-2/M82	0.81485	0.56
12-4/M82	0.86621	0.358
1-3/M82	1.24572	1
2-1-1/M82	1.01572	1
2-1/M82	0.96149	0.74
2-6/M82	0.94307	1
3-2/M82	0.93598
4-1-1/M82	1.18678	1
4-1/M82	0.85329	0.998
4-3-2/M82	1.16129
4-3/M82	0.95611	1
5-3/M82	0.98697	1
6-2/M82	0.97078	1
6-3/M82	1.03919	1
7-1/M82	1.06455	1
7-2/M82	1.19456	1
9-3-2/M82	1.11623	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88155	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.65367	1
IL7-3/WTpooled	0.96345
IL12-4/WTpooled	1.03989	1
IL1-4/WTpooled	0.76477	0.444
WT/WTpooled	N/A	N/A

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	1.07456	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86253	1
DC3000/delta hrp 6h	1.23626	0.978
DC3000/delta hrp 12h	1.03792	1
DC3000/delta hrp 24h	1.63807	0.033

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.36683	0.087
DC3000 delta B/DC3000 delta AB	1.58677	0.09

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.27863	1
Exp 36h	1.14218	1
Exp 60h	1.50118	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00482	1
Var 0h	1.04488	1
Var 12h I row2-row1	1.10459	0.228
Var 12h NI row2-row1	1.08574	0.649
Var 36h I row2-row1	1.24692	0.368
Var 36h NI row2-row1	0.86468	0.584
Var 60h I row2-row1	0.77278	0.374
Var 60h NI row2-row1	0.86528	0.431
Time course 0hI-0hNI	1.02812	0.867
Time course 12hI-12hNI	1.1171	0.148
Time course 36hI-36hNI	1.55786	0.005
Time course 60hI-60hNI	2.29775	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)	0.89817	0.286
transgenic ySAMdc/azygous control (breaker)	0.91658	0.131
transgenic ySAMdc/azygous control (red)	0.96077	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15382	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80592	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00409	1
Manapal/WT (break)	0.95	1
Manapal/WT (red)	1.12494	0.413