Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.924	0.617
27DAP/17DAP	1.15626	0.836
39DAP/27DAP	1.32347	0.53
41DAP/39DAP	1.00546	0.946
42DAP/41DAP	0.95249	1
43DAP/42DAP	0.96812	0.909
47DAP/43DAP	0.93951	0.779
52DAP/47DAP	1.311	0.794
57DAP/52DAP	1.01467	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79796	0.063
17DAP/reference	0.9195	0.147
27DAP/reference	0.95708	0.538
39DAP/reference	1.00146	1
41DAP/reference	0.82975	0.039
42DAP/reference	1.02344	0.931
43DAP/reference	0.96971	0.691
47DAP/reference	1.09978	0.182
52DAP/reference	1.26628	0.018
57DAP/reference	1.23218	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09413	0.923
27DAP/17DAP	0.95761	0.878
39DAP/27DAP	1.02187	0.779
41DAP/39DAP	1.07515	0.887
42DAP/41DAP	0.83759	0.08
43DAP/42DAP	1.39742	0.066
47DAP/43DAP	1.06942	0.93
52DAP/47DAP	1.12964	0.645
57DAP/52DAP	1.14916	0.327
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8878	0.27
17DAP/reference	0.81049	0.338
27DAP/reference	1.23994	0.301
39DAP/reference	0.79934	0.083
41DAP/reference	1.11022	0.416
42DAP/reference	1.04322	0.582
43DAP/reference	1.52188	0.111
47DAP/reference	0.99016	0.671
52DAP/reference	0.99705	0.74
57DAP/reference	1.097	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86336	0.124
17DAP/reference	0.84527	0.045
27DAP/reference	0.90071	0.257
39DAP/reference	0.94507	0.221
41DAP/reference	1.03266	1
42DAP/reference	0.92299	0.237
43DAP/reference	0.90322	0.217
47DAP/reference	0.97273	0.168
52DAP/reference	0.93618	0.131
57DAP/reference	0.97842	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	0.76401	0.144
27DAP/reference	2.63313	0.171
39DAP/reference	1.23629	0.406
41DAP/reference	0.78641	0.03
42DAP/reference	0.94547	0.059
43DAP/reference	1.00296	0.858
47DAP/reference	1.09161	0.339
52DAP/reference	0.97711	0.704
57DAP/reference	1.10843	0.354

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.37888	0.966
26DAP/20DAP	1.05025	1
34DAP/26DAP	0.91405	0.539
51DAP/34DAP	1.23227	0.692
52DAP/51DAP	0.99418	1
53DAP/52DAP	1.02019	1
55DAP/53DAP	0.90975	0.838
57DAP/55DAP	0.96506	0.867
62DAP/57DAP	0.62897
68DAP/62DAP	1.11048	1
68DAP/14DAP	1.423	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.25643	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6316	0.213
Mature Green Tomato/Ripe Tomato	0.76816	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.43719	0.224
Mature Eggplant/Ripe Tomato	0.1972	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.65535	0.574
1-1-2/M82	1.04733	1
12-2/M82	0.94856	0.955
12-4/M82	1.11331	1
1-3/M82	1.10385	0.248
2-1-1/M82	0.97656	1
2-1/M82	1.01593	1
2-6/M82	0.84776	1
3-2/M82	0.96987
4-1-1/M82	0.81906	1
4-1/M82	0.61948
4-3-2/M82	0.81519	0.487
4-3/M82	1.09759	1
5-3/M82	1.21401	0.572
6-2/M82	N/A	N/A
6-3/M82	1.05354	1
7-1/M82	0.89562	1
7-2/M82	1.13713	1
9-3-2/M82	0.94433	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94435	1
IL2-6/WTpooled	1.03935	1
IL7-5/WTpooled	0.40354	1
IL7-3/WTpooled	0.76108	0.294
IL12-4/WTpooled	0.99036	0.581
IL1-4/WTpooled	1.10101	1
WT/WTpooled	1.09907	0.874

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	1.14432	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0345	1
DC3000/delta hrp 6h	1.1325	1
DC3000/delta hrp 12h	0.82544
DC3000/delta hrp 24h	1.14342	0.582

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	1.23206	1
Exp 36h	1.34696	0.693
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	1.02126	1
Var 0h	1.04795
Var 12h I row2-row1	1.09083	0.692
Var 12h NI row2-row1	1.14458	1
Var 36h I row2-row1	0.94329	1
Var 36h NI row2-row1	0.97801
Var 60h I row2-row1	1.15548
Var 60h NI row2-row1	0.96931	1
Time course 0hI-0hNI	0.94303	0.612
Time course 12hI-12hNI	1.44577	0.005
Time course 36hI-36hNI	1.67027	0.005
Time course 60hI-60hNI	1.70745	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)	1.10783	0.431
transgenic ySAMdc/azygous control (breaker)	0.88773	0.49
transgenic ySAMdc/azygous control (red)	1.09788	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01285	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89552	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03466	1
Manapal/WT (break)	1.08203	1
Manapal/WT (red)	1.18339	0.137