Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.16.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97329	0.76
27DAP/17DAP	1.41664	0.761
39DAP/27DAP	1.22563	0.416
41DAP/39DAP	0.86596	0.494
42DAP/41DAP	1.1516	0.873
43DAP/42DAP	1.02675	0.937
47DAP/43DAP	1.11843	0.873
52DAP/47DAP	1.22718	0.891
57DAP/52DAP	1.10159	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98783	0.589
17DAP/reference	0.93206	0.085
27DAP/reference	0.92241	0.083
39DAP/reference	0.93109	0.072
41DAP/reference	0.9576	0.267
42DAP/reference	1.02934	0.504
43DAP/reference	1.0156	0.787
47DAP/reference	1.01436	0.752
52DAP/reference	1.11817	0.354
57DAP/reference	1.09465	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04085	1
27DAP/17DAP	0.93286	0.724
39DAP/27DAP	1.01267	1
41DAP/39DAP	0.96813	0.945
42DAP/41DAP	1.03897	0.947
43DAP/42DAP	1.02131	0.83
47DAP/43DAP	0.9317	0.637
52DAP/47DAP	1.24807	0.563
57DAP/52DAP	0.93075	0.626
57DAP/7DAP	1.06773	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84886	0.183
17DAP/reference	0.85476	0.124
27DAP/reference	0.89788	0.2
39DAP/reference	0.89106	0.083
41DAP/reference	1.01661	1
42DAP/reference	0.84733	0.117
43DAP/reference	0.90022	0.279
47DAP/reference	0.94626	0.504
52DAP/reference	1.02095	1
57DAP/reference	0.95796	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9583	0.487
17DAP/reference	1.01102	1
27DAP/reference	1.03344	0.888
39DAP/reference	1.03929	0.868
41DAP/reference	0.99214	0.57
42DAP/reference	1.05542	0.38
43DAP/reference	1.01223	1
47DAP/reference	1.04466	0.544
52DAP/reference	0.94183	0.203
57DAP/reference	1.03641	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98922	0.653
17DAP/reference	0.97322	0.592
27DAP/reference	0.90149	0.302
39DAP/reference	0.96973	0.591
41DAP/reference	1.09319	0.486
42DAP/reference	1.02871	1
43DAP/reference	1.09752	0.381
47DAP/reference	1.06496	0.163
52DAP/reference	1.07573	0.575
57DAP/reference	1.14469	0.151

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99262	1
26DAP/20DAP	0.98703	1
34DAP/26DAP	1.07329	1
51DAP/34DAP	1.47147	0.105
52DAP/51DAP	0.99363	1
53DAP/52DAP	0.97614	0.891
55DAP/53DAP	1.12806	0.19
57DAP/55DAP	1.06646	0.986
62DAP/57DAP	0.71711	0.05
68DAP/62DAP	0.82575	0.429
68DAP/14DAP	1.08688	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56139	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95124	0.658
Mature Green Tomato/Ripe Tomato	1.64116	0.038
Immature Eggplant/Mature Eggplant	1.07011	0.321
Ripe Pepper/Ripe Tomato	1.12495	1
Mature Eggplant/Ripe Tomato	1.0226

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.01041	1
12-2/M82	N/A	N/A
12-4/M82	1.33372	0.694
1-3/M82	0.70731
2-1-1/M82	1.12285
2-1/M82	N/A	N/A
2-6/M82	1.43975	0.374
3-2/M82	1.08838	0.388
4-1-1/M82	N/A	N/A
4-1/M82	1.15896
4-3-2/M82	0.93079	1
4-3/M82	0.69649	0.509
5-3/M82	0.96601	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.22345	0.598
7-2/M82	1.48898
9-3-2/M82	0.98462	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.94596	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.64333
WT/WTpooled	1.49591	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	0.62335	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92968	1
DC3000/delta hrp 6h	1.34826	1
DC3000/delta hrp 12h	0.98066	1
DC3000/delta hrp 24h	1.20286	0.05

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	0.94569	1
Exp 36h	1.1951	1
Exp 60h	1.09093	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02032	1
Var 0h	0.75835	0.98
Var 12h I row2-row1	1.0467	0.613
Var 12h NI row2-row1	0.51352	1
Var 36h I row2-row1	0.8026	1
Var 36h NI row2-row1	1.44435	1
Var 60h I row2-row1	0.92669	0.439
Var 60h NI row2-row1	0.95375	1
Time course 0hI-0hNI	1.02175	0.486
Time course 12hI-12hNI	0.9374	0.705
Time course 36hI-36hNI	0.88022	0.202
Time course 60hI-60hNI	1.4824	0.013

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)	0.88804	0.309
transgenic ySAMdc/azygous control (breaker)	1.24079	0.178
transgenic ySAMdc/azygous control (red)	1.18748	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01224	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5766	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04601	0.307
Manapal/WT (break)	1.02071	1
Manapal/WT (red)	1.28402	0.413