Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96124	0.743
27DAP/17DAP	1.26658	0.849
39DAP/27DAP	0.66187	0.304
41DAP/39DAP	1.82279	0.236
42DAP/41DAP	0.94588	1
43DAP/42DAP	0.94453	0.892
47DAP/43DAP	1.0716	0.609
52DAP/47DAP	1.07559	0.976
57DAP/52DAP	0.90982	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96146	0.371
17DAP/reference	0.98198	0.597
27DAP/reference	0.98586	0.683
39DAP/reference	0.99358	0.901
41DAP/reference	1.02612	0.171
42DAP/reference	0.88973	0.006
43DAP/reference	0.98069	0.611
47DAP/reference	0.89172	0.008
52DAP/reference	0.87451	0.026
57DAP/reference	0.96619	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1	0.899
27DAP/17DAP	0.99167	0.887
39DAP/27DAP	1.03454	0.603
41DAP/39DAP	1.07791	0.774
42DAP/41DAP	0.97913	0.774
43DAP/42DAP	0.9867	0.831
47DAP/43DAP	0.98793	0.919
52DAP/47DAP	1.02096	0.919
57DAP/52DAP	1.02196	0.895
57DAP/7DAP	1.05669	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07396	0.564
17DAP/reference	1.00002	0.693
27DAP/reference	1.10413	0.16
39DAP/reference	1.18517	0.053
41DAP/reference	1.03263	1
42DAP/reference	1.22755	0.046
43DAP/reference	1.14648	0.132
47DAP/reference	0.89083	0.066
52DAP/reference	1.15185	0.159
57DAP/reference	0.89553	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07277	0.438
17DAP/reference	0.96636	0.357
27DAP/reference	0.93642	0.257
39DAP/reference	0.90112	0.108
41DAP/reference	0.95215	0.212
42DAP/reference	0.96924	0.392
43DAP/reference	1.0401	0.633
47DAP/reference	0.96372	0.178
52DAP/reference	0.99614	0.666
57DAP/reference	1.07455	0.108

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.029	0.918
17DAP/reference	0.95797	0.499
27DAP/reference	0.99883	0.843
39DAP/reference	0.9966	0.819
41DAP/reference	0.96363	0.417
42DAP/reference	0.91614	0.287
43DAP/reference	0.97284	0.545
47DAP/reference	0.96314	0.357
52DAP/reference	0.96284	0.573
57DAP/reference	0.70608	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02729	0.966
26DAP/20DAP	0.91657	0.244
34DAP/26DAP	1.0007	1
51DAP/34DAP	0.90001	0.246
52DAP/51DAP	0.99622	1
53DAP/52DAP	1.05148	0.819
55DAP/53DAP	0.90941	0.5
57DAP/55DAP	1.13032	0.666
62DAP/57DAP	1.19725	0.257
68DAP/62DAP	0.75865	0.345
68DAP/14DAP	1.02948	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93812	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.00134	0.774
Immature Eggplant/Mature Eggplant	1.03823
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.197

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02541	1
1-1-2/M82	1.02893	1
12-2/M82	0.96777	0.955
12-4/M82	0.88472	1
1-3/M82	0.92792	0.501
2-1-1/M82	1.01578	1
2-1/M82	1.11732	1
2-6/M82	0.95523	1
3-2/M82	0.97015
4-1-1/M82	0.98381	1
4-1/M82	1.03745	1
4-3-2/M82	0.86412	1
4-3/M82	1.03231	1
5-3/M82	0.96968	1
6-2/M82	1.05672	1
6-3/M82	0.9062	0.587
7-1/M82	1.00305	1
7-2/M82	1.05495	1
9-3-2/M82	0.76395	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.20612	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.15357	1
IL12-4/WTpooled	1.08694	0.624
IL1-4/WTpooled	1.00043	1
WT/WTpooled	1.04373	0.87

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	1.41943	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95996	1
DC3000/delta hrp 6h	0.914
DC3000/delta hrp 12h	1.06844	1
DC3000/delta hrp 24h	1.05113	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06036	0.355
DC3000 delta B/DC3000 delta AB	1.00426	0.761

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03343	1
Exp 36h	2.3369	0.693
Exp 60h	2.0759	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98457	1
Var 0h	0.85478	1
Var 12h I row2-row1	1.16403	0.216
Var 12h NI row2-row1	1.01873	1
Var 36h I row2-row1	0.9982	1
Var 36h NI row2-row1	0.9225	0.645
Var 60h I row2-row1	1.24225	1
Var 60h NI row2-row1	1.14814	0.904
Time course 0hI-0hNI	1.1107	0.833
Time course 12hI-12hNI	1.04376	0.773
Time course 36hI-36hNI	1.01673	0.881
Time course 60hI-60hNI	1.1669	0.115

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)	1.4858	0.408
transgenic ySAMdc/azygous control (breaker)	0.90103	0.49
transgenic ySAMdc/azygous control (red)	1.04745	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9693	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.798	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90252	1
Manapal/WT (break)	1.01146	1
Manapal/WT (red)	0.77373	0.274