Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81599	0.253
27DAP/17DAP	0.86691	0.661
39DAP/27DAP	1.31108	0.47
41DAP/39DAP	0.85616	0.453
42DAP/41DAP	1.23155	0.825
43DAP/42DAP	0.90695	0.744
47DAP/43DAP	0.77947	0.33
52DAP/47DAP	1.07726	0.953
57DAP/52DAP	1.3601	0.886

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98527	0.63
17DAP/reference	1.05606	0.248
27DAP/reference	0.9891	0.741
39DAP/reference	1.00751	0.828
41DAP/reference	1.01247	1
42DAP/reference	0.87231	0.017
43DAP/reference	0.99411	0.84
47DAP/reference	0.98246	0.473
52DAP/reference	0.95481	0.393
57DAP/reference	1.05229	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04962	0.87
27DAP/17DAP	1.14688	0.811
39DAP/27DAP	0.95962	0.768
41DAP/39DAP	1.08912	0.896
42DAP/41DAP	0.94557	0.591
43DAP/42DAP	0.99317	0.991
47DAP/43DAP	1.08076	0.772
52DAP/47DAP	0.80342	0.202
57DAP/52DAP	0.96663	0.697
57DAP/7DAP	1.23859	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.69982	0.03
17DAP/reference	1.46056	0.006
27DAP/reference	1.43977	0.012
39DAP/reference	1.61309	0.007
41DAP/reference	1.39874	0.072
42DAP/reference	1.26103	0.076
43DAP/reference	1.26755	0.053
47DAP/reference	1.1751	0.304
52DAP/reference	1.38535	0.076
57DAP/reference	1.25567	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03697	0.993
17DAP/reference	0.88819	0.059
27DAP/reference	0.9448	0.381
39DAP/reference	1.01697	0.661
41DAP/reference	0.98043	0.451
42DAP/reference	0.82182	0.027
43DAP/reference	0.89034	0.217
47DAP/reference	0.91775	0.021
52DAP/reference	0.92866	0.143
57DAP/reference	0.89567	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52634	0.032
17DAP/reference	1.06058	0.932
27DAP/reference	1.39996	0.022
39DAP/reference	1.15108	0.104
41DAP/reference	1.28806	0.039
42DAP/reference	1.12124	0.49
43DAP/reference	1.08267	0.84
47DAP/reference	0.89198	0.097
52DAP/reference	1.32757	0.216
57DAP/reference	1.28272	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98285	1
26DAP/20DAP	2.3322	0.097
34DAP/26DAP	0.81598	0.374
51DAP/34DAP	1.21705	0.132
52DAP/51DAP	0.95244	1
53DAP/52DAP	0.91167	0.621
55DAP/53DAP	0.7686	0.293
57DAP/55DAP	1.27205	0.682
62DAP/57DAP	1.25923	0.767
68DAP/62DAP	1.21549	0.549
68DAP/14DAP	1.21206	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.63613	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.17967	0.113
Mature Green Tomato/Ripe Tomato	1.0219	0.774
Immature Eggplant/Mature Eggplant	1.03713	1
Ripe Pepper/Ripe Tomato	2.10904	0.258
Mature Eggplant/Ripe Tomato	1.81174	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8386	0.841
1-1-2/M82	1.16632	1
12-2/M82	0.9155	0.955
12-4/M82	0.879	1
1-3/M82	2.3211	0.248
2-1-1/M82	0.73649	0.465
2-1/M82	0.87618	0.74
2-6/M82	0.74462	1
3-2/M82	1.37922
4-1-1/M82	0.88976	1
4-1/M82	0.92867	1
4-3-2/M82	1.34662	0.508
4-3/M82	1.2073	1
5-3/M82	1.24383	0.572
6-2/M82	0.83036
6-3/M82	1.0379	1
7-1/M82	0.94509	0.803
7-2/M82	1.18241	1
9-3-2/M82	1.24564	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90589	1
IL2-6/WTpooled	1.22464	0.659
IL7-5/WTpooled	1.7343
IL7-3/WTpooled	0.98649	1
IL12-4/WTpooled	0.99996	1
IL1-4/WTpooled	0.95861	0.444
WT/WTpooled	1.02126	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	1.03507	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09988	0.774
DC3000/delta hrp 6h	0.89896	0.95
DC3000/delta hrp 12h	0.91371	1
DC3000/delta hrp 24h	1.12653	0.221

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13667	0.05
DC3000 delta B/DC3000 delta AB	1.13975	0.321

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8032	0.328
Exp 36h	1.12755	1
Exp 60h	1.11439	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97771	1
Var 0h	0.93699	0.933
Var 12h I row2-row1	0.99311	1
Var 12h NI row2-row1	1.31751	0.649
Var 36h I row2-row1	1.16549	0.742
Var 36h NI row2-row1	0.87471	0.645
Var 60h I row2-row1	0.80821	0.292
Var 60h NI row2-row1	0.8719	0.756
Time course 0hI-0hNI	0.87336	0.226
Time course 12hI-12hNI	1.03986	0.798
Time course 36hI-36hNI	1.44038	0.009
Time course 60hI-60hNI	1.57898	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)	0.99682	0.931
transgenic ySAMdc/azygous control (breaker)	1.00988	1
transgenic ySAMdc/azygous control (red)	1.05592	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05816	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86104	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0193	1
Manapal/WT (break)	1.16782	0.381
Manapal/WT (red)	1.60741	0.164