Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01188	0.927
27DAP/17DAP	0.88623	0.751
39DAP/27DAP	1.01412	1
41DAP/39DAP	0.96845	0.866
42DAP/41DAP	1.02557	1
43DAP/42DAP	0.87351	0.801
47DAP/43DAP	0.92653	0.736
52DAP/47DAP	1.3	0.478
57DAP/52DAP	0.91297	0.8

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91499	0.269
17DAP/reference	0.91382	0.091
27DAP/reference	0.90719	0.141
39DAP/reference	0.86642	0.11
41DAP/reference	0.9356	0.201
42DAP/reference	0.94743	0.033
43DAP/reference	0.88328	0.163
47DAP/reference	0.91018	0.011
52DAP/reference	0.88804	0.03
57DAP/reference	0.87424	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00947	0.961
27DAP/17DAP	1.00931	0.967
39DAP/27DAP	0.9697	0.673
41DAP/39DAP	1.0936	0.326
42DAP/41DAP	1.00599	1
43DAP/42DAP	0.96554	0.181
47DAP/43DAP	0.97506	0.701
52DAP/47DAP	0.94815	0.56
57DAP/52DAP	1.01766	0.933
57DAP/7DAP	1.06054	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92983	0.246
17DAP/reference	1.01694	0.896
27DAP/reference	1.07783	0.301
39DAP/reference	1.0153	1
41DAP/reference	1.02256	0.812
42DAP/reference	1.04868	0.405
43DAP/reference	1.01357	0.707
47DAP/reference	0.82109	0.079
52DAP/reference	0.94439	0.066
57DAP/reference	1.0316	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91554	0.277
17DAP/reference	0.89661	0.113
27DAP/reference	0.85543	0.049
39DAP/reference	0.83599	0.043
41DAP/reference	0.8748	0.058
42DAP/reference	1.1556	0.509
43DAP/reference	0.80622	0.019
47DAP/reference	1.06118	0.572
52DAP/reference	0.82434	0.004
57DAP/reference	0.85089	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12013	0.481
17DAP/reference	0.91951	0.046
27DAP/reference	0.94009	0.036
39DAP/reference	0.90565	0.199
41DAP/reference	0.91649	0.371
42DAP/reference	0.91006	0.016
43DAP/reference	0.9866	0.614
47DAP/reference	0.8182	0.057
52DAP/reference	0.99665	0.888
57DAP/reference	0.84978	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9754	1
26DAP/20DAP	0.95478	1
34DAP/26DAP	0.91786	0.841
51DAP/34DAP	0.9113	0.472
52DAP/51DAP	1.00596	0.904
53DAP/52DAP	1.095	0.413
55DAP/53DAP	0.99116	0.876
57DAP/55DAP	0.90085	0.748
62DAP/57DAP	1.09582	0.767
68DAP/62DAP	0.99984	0.939
68DAP/14DAP	1.06946	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99219	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06411
Mature Green Tomato/Ripe Tomato	1.27472	0.399
Immature Eggplant/Mature Eggplant	1.24198	0.165
Ripe Pepper/Ripe Tomato	1.43052
Mature Eggplant/Ripe Tomato	3.90946	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90527	0.883
1-1-2/M82	0.93483	1
12-2/M82	0.91035	0.496
12-4/M82	0.96529	1
1-3/M82	0.97004	0.501
2-1-1/M82	0.96039	0.92
2-1/M82	1.22383	1
2-6/M82	0.88023	1
3-2/M82	1.03884	0.84
4-1-1/M82	1.05114	1
4-1/M82	0.97214	1
4-3-2/M82	0.85319	0.698
4-3/M82	0.88374	0.551
5-3/M82	0.98584	1
6-2/M82	0.99444	1
6-3/M82	1.03053	1
7-1/M82	1.0239	0.598
7-2/M82	1.03146	1
9-3-2/M82	0.87031	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85437	0.247
IL2-6/WTpooled	0.92631	1
IL7-5/WTpooled	0.91279	1
IL7-3/WTpooled	0.77165	0.31
IL12-4/WTpooled	0.81359	0.543
IL1-4/WTpooled	0.9266	0.444
WT/WTpooled	1.03816	0.999

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	0.62799	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00993	1
DC3000/delta hrp 6h	1.31012	0.672
DC3000/delta hrp 12h	0.96095	1
DC3000/delta hrp 24h	1.47127	0.136

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14833	0.134
DC3000 delta B/DC3000 delta AB	0.90902	0.359

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	1.04533	1
Var 0h	1.0251	1
Var 12h I row2-row1	1.25207	0.202
Var 12h NI row2-row1	0.9391	0.627
Var 36h I row2-row1	0.9785	1
Var 36h NI row2-row1	0.95441	0.791
Var 60h I row2-row1	1.37296	0.562
Var 60h NI row2-row1	1.2454	0.904
Time course 0hI-0hNI	1.09931	0.799
Time course 12hI-12hNI	1.15326	0.409
Time course 36hI-36hNI	1.03708	0.975
Time course 60hI-60hNI	0.9773	0.646

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)	0.71738	0.277
transgenic ySAMdc/azygous control (breaker)	1.08014	1
transgenic ySAMdc/azygous control (red)	1.47827	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05925	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.63446	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57555	1
Manapal/WT (break)	0.14447	0.333
Manapal/WT (red)	0.72412	0.181