Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07345	0.851
27DAP/17DAP	1.2538	0.809
39DAP/27DAP	1.60888	0.933
41DAP/39DAP	1.16037	0.871
42DAP/41DAP	1.023	1
43DAP/42DAP	1.59392	0.269
47DAP/43DAP	1.00681	1
52DAP/47DAP	1.68814	0.559
57DAP/52DAP	1.17826	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07093	0.567
17DAP/reference	1.14796	0.092
27DAP/reference	1.43681	0.041
39DAP/reference	1.4497	0.062
41DAP/reference	1.44061	0.015
42DAP/reference	1.01841	1
43DAP/reference	1.07971	0.518
47DAP/reference	0.96446	0.345
52DAP/reference	1.1296	0.272
57DAP/reference	1.26618	0.114

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02471	1
27DAP/17DAP	0.92355	0.821
39DAP/27DAP	1.04478	0.742
41DAP/39DAP	1.21006	0.417
42DAP/41DAP	1.15433	0.893
43DAP/42DAP	1.11322	0.382
47DAP/43DAP	0.98952	0.939
52DAP/47DAP	0.89685	0.677
57DAP/52DAP	1.19104	0.529
57DAP/7DAP	1.32533	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.60848	0.029
17DAP/reference	1.30318	0.221
27DAP/reference	1.1778	0.551
39DAP/reference	1.28032	0.126
41DAP/reference	1.36278	0.019
42DAP/reference	1.35046	0.013
43DAP/reference	1.31098	0.029
47DAP/reference	1.06909	0.647
52DAP/reference	1.30707	0.007
57DAP/reference	1.31938	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11184	0.443
17DAP/reference	1.19906	0.107
27DAP/reference	1.13778	0.288
39DAP/reference	1.06611	0.324
41DAP/reference	0.95444	0.34
42DAP/reference	1.00087	0.655
43DAP/reference	1.38	0.401
47DAP/reference	0.96322	0.423
52DAP/reference	1.08607	0.882
57DAP/reference	1.076	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52906	0.024
17DAP/reference	1.08285	0.343
27DAP/reference	1.27462	0.081
39DAP/reference	1.21931	0.048
41DAP/reference	1.21979	0.077
42DAP/reference	1.05584	0.701
43DAP/reference	0.99538	0.767
47DAP/reference	1.10846	0.207
52DAP/reference	1.07089	0.623
57DAP/reference	0.86464	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22515	0.966
26DAP/20DAP	1.07152	0.974
34DAP/26DAP	1.36334	0.819
51DAP/34DAP	1.30179	0.909
52DAP/51DAP	0.98006	1
53DAP/52DAP	0.92278	0.772
55DAP/53DAP	0.94355	0.761
57DAP/55DAP	0.94624	0.78
62DAP/57DAP	0.85557	0.28
68DAP/62DAP	0.93822	0.668
68DAP/14DAP	1.39505	0.103

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41786	0.03

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.09819	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.17555	1
Mature Eggplant/Ripe Tomato	0.31544	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.28287
12-2/M82	N/A	N/A
12-4/M82	0.93167	1
1-3/M82	N/A	N/A
2-1-1/M82	1.05935	0.295
2-1/M82	N/A	N/A
2-6/M82	1.04085
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.30802
5-3/M82	0.89824	0.447
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.97827
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.41673	0.277
IL2-6/WTpooled	1.30542
IL7-5/WTpooled	0.7222	1
IL7-3/WTpooled	0.90423	1
IL12-4/WTpooled	1.09969	0.839
IL1-4/WTpooled	1.03912	1
WT/WTpooled	0.99231	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	1.19833	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0117	1
DC3000/delta hrp 6h	1.09166	1
DC3000/delta hrp 12h	0.89919	1
DC3000/delta hrp 24h	1.36794	0.165

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	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	1.04112	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.95067	0.856
Var 12h NI row2-row1	1.09856	1
Var 36h I row2-row1	1.41079	0.41
Var 36h NI row2-row1	0.52734	0.584
Var 60h I row2-row1	0.93983	1
Var 60h NI row2-row1	0.80421	0.866
Time course 0hI-0hNI	1.00221	1
Time course 12hI-12hNI	1.27886	0.019
Time course 36hI-36hNI	1.49391	0.006
Time course 60hI-60hNI	2.1794	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)	1.03575	1
transgenic ySAMdc/azygous control (breaker)	0.64773	0.131
transgenic ySAMdc/azygous control (red)	0.9183	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96736	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.84418	1
Manapal/WT (red)	0.72085	0.181