Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.5.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68437	0.211
27DAP/17DAP	1.0863	0.872
39DAP/27DAP	1.4131	0.27
41DAP/39DAP	0.99056	0.852
42DAP/41DAP	1.16878	0.825
43DAP/42DAP	1.1638	0.993
47DAP/43DAP	0.97641	0.868
52DAP/47DAP	1.05081	0.957
57DAP/52DAP	1.24403	0.902

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20732	0.078
17DAP/reference	1.01557	1
27DAP/reference	0.96221	0.711
39DAP/reference	1.29638	0.157
41DAP/reference	1.29396	0.287
42DAP/reference	1.3111	0.287
43DAP/reference	1.10293	0.812
47DAP/reference	1.30332	0.84
52DAP/reference	1.29296	0.217
57DAP/reference	1.15767	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76281	0.096
27DAP/17DAP	0.8431	0.218
39DAP/27DAP	1.04631	0.742
41DAP/39DAP	1.29054	0.315
42DAP/41DAP	0.96682	0.721
43DAP/42DAP	0.85667	0.093
47DAP/43DAP	1.12091	0.383
52DAP/47DAP	0.81015	0.192
57DAP/52DAP	0.93156	0.641
57DAP/7DAP	0.73941	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94666	0.495
17DAP/reference	1.28205	0.477
27DAP/reference	1.04471	0.664
39DAP/reference	1.09514	0.511
41DAP/reference	1.029	0.637
42DAP/reference	0.99931	0.612
43DAP/reference	0.7539	0.042
47DAP/reference	1.17536	0.254
52DAP/reference	1.0609	0.684
57DAP/reference	1.03083	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09237	0.863
17DAP/reference	1.04139	0.904
27DAP/reference	1.37913	0.254
39DAP/reference	1.05957	1
41DAP/reference	1.51423	0.026
42DAP/reference	0.95243	0.433
43DAP/reference	1.23684	0.112
47DAP/reference	1.06156	0.527
52DAP/reference	1.1109	0.006
57DAP/reference	1.00117

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30753	0.033
17DAP/reference	1.08528	0.572
27DAP/reference	0.9053	0.49
39DAP/reference	0.9649	0.643
41DAP/reference	0.99927	0.826
42DAP/reference	1.0465	0.836
43DAP/reference	1.39379	0.116
47DAP/reference	0.77143	0.325
52DAP/reference	0.95951	0.663
57DAP/reference	0.91151	0.461

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8154	0.733
26DAP/20DAP	1.49826	0.102
34DAP/26DAP	0.53891	0.046
51DAP/34DAP	0.86422	0.472
52DAP/51DAP	1.53272	0.565
53DAP/52DAP	1.07499	0.753
55DAP/53DAP	1.05134	0.989
57DAP/55DAP	0.76946	0.423
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.95587
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27602	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.85292	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.95532
12-2/M82	0.05243
12-4/M82	1.55072
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.61311
4-3-2/M82	1.56047	0.241
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86751
7-2/M82	N/A	N/A
9-3-2/M82	1.30284

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19447	1
IL2-6/WTpooled	0.77666
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.82967
IL1-4/WTpooled	1.48011	1
WT/WTpooled	1.11117	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	1.04619	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09858
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.68379	0.111

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09371	0.29
DC3000 delta B/DC3000 delta AB	1.29556	0.107

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01733	1
Var 0h	1.15026	0.594
Var 12h I row2-row1	1.10484	1
Var 12h NI row2-row1	1.09879	1
Var 36h I row2-row1	1.26813	0.309
Var 36h NI row2-row1	0.84578	0.645
Var 60h I row2-row1	0.84658	0.306
Var 60h NI row2-row1	0.90433	0.756
Time course 0hI-0hNI	0.75069	0.044
Time course 12hI-12hNI	1.01262	0.867
Time course 36hI-36hNI	0.98988	0.644
Time course 60hI-60hNI	1.37933	0.017

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)	0.62728	0.286
transgenic ySAMdc/azygous control (breaker)	1.28581	0.248
transgenic ySAMdc/azygous control (red)	0.79148	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.20876	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07834	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A