Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.19.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03572	1
27DAP/17DAP	0.86988	0.674
39DAP/27DAP	1.37653	0.507
41DAP/39DAP	0.68397	0.109
42DAP/41DAP	0.87658	1
43DAP/42DAP	0.95272	0.888
47DAP/43DAP	0.86234	0.565
52DAP/47DAP	1.00633	0.88
57DAP/52DAP	1.05313	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89994	0.078
17DAP/reference	0.78996	0.033
27DAP/reference	0.95828	0.538
39DAP/reference	0.91875	0.475
41DAP/reference	0.61808	0.011
42DAP/reference	0.93172	0.107
43DAP/reference	0.91646	0.123
47DAP/reference	0.95071	0.224
52DAP/reference	1.18533	0.072
57DAP/reference	1.09561	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95377	0.509
27DAP/17DAP	1.05721	0.822
39DAP/27DAP	0.92692	0.496
41DAP/39DAP	1.04648	1
42DAP/41DAP	1.08249	0.663
43DAP/42DAP	0.90248	0.235
47DAP/43DAP	0.93577	0.656
52DAP/47DAP	1.17891	0.467
57DAP/52DAP	1.37476	0.146
57DAP/7DAP	1.08547	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97216	0.495
17DAP/reference	1.00112	1
27DAP/reference	1.00799	0.698
39DAP/reference	0.82197	0.064
41DAP/reference	0.89411	0.184
42DAP/reference	0.73752	0.077
43DAP/reference	0.79986	0.082
47DAP/reference	1.01181	1
52DAP/reference	0.81052	0.028
57DAP/reference	0.86373	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73022	0.016
17DAP/reference	0.78694	0.035
27DAP/reference	1.14116	0.352
39DAP/reference	1.27337	0.272
41DAP/reference	1.29182	0.03
42DAP/reference	1.14032	0.267
43DAP/reference	0.8192	0.152
47DAP/reference	0.81516	0.018
52DAP/reference	1.13068	0.498
57DAP/reference	0.6254	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90201	0.147
17DAP/reference	0.91708	0.417
27DAP/reference	0.99365	0.727
39DAP/reference	0.99008	0.693
41DAP/reference	1.04639	0.961
42DAP/reference	1.30306	0.3
43DAP/reference	1.15786	0.815
47DAP/reference	1.14158	0.76
52DAP/reference	0.92116	0.395
57DAP/reference	2.43797	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05334	1
26DAP/20DAP	1.43454	0.654
34DAP/26DAP	1.76223	0.819
51DAP/34DAP	0.95628	0.667
52DAP/51DAP	2.60622	0.034
53DAP/52DAP	0.78735	0.122
55DAP/53DAP	1.37995	0.053
57DAP/55DAP	0.55888	0.074
62DAP/57DAP	1.29071	0.445
68DAP/62DAP	2.42449	0.03
68DAP/14DAP	2.98573	0.029

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.48541	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.42967	0.058
Mature Green Tomato/Ripe Tomato	1.91619	0.024
Immature Eggplant/Mature Eggplant	0.865	0.125
Ripe Pepper/Ripe Tomato	0.55113	0.293
Mature Eggplant/Ripe Tomato	0.77119	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.18629	0.877
1-1-2/M82	1.01346	1
12-2/M82	1.02405	1
12-4/M82	1.20027	1
1-3/M82	1.23293	0.277
2-1-1/M82	1.14484	0.764
2-1/M82	1.02066	1
2-6/M82	1.01868	1
3-2/M82	1.17565	0.549
4-1-1/M82	1.2968	1
4-1/M82	0.93754
4-3-2/M82	1.12757	0.508
4-3/M82	1.67391	0.268
5-3/M82	0.95861	1
6-2/M82	1.00374	1
6-3/M82	0.99544	1
7-1/M82	0.91257	0.466
7-2/M82	0.93085	0.796
9-3-2/M82	0.97866

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.04606	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85909	1
DC3000/delta hrp 6h	1.06801	1
DC3000/delta hrp 12h	1.21882	1
DC3000/delta hrp 24h	0.89308	0.202

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14667	0.042
DC3000 delta B/DC3000 delta AB	1.29038	0.161

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07521	1
Exp 36h	1.00373	1
Exp 60h	1.03019	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0351	1
Var 0h	0.73086	0.457
Var 12h I row2-row1	0.89641	0.39
Var 12h NI row2-row1	1.0153	1
Var 36h I row2-row1	1.09463	1
Var 36h NI row2-row1	0.96705	0.791
Var 60h I row2-row1	0.98067	1
Var 60h NI row2-row1	0.90907	0.977
Time course 0hI-0hNI	1.02097	0.867
Time course 12hI-12hNI	1.08764	0.654
Time course 36hI-36hNI	1.17842	0.007
Time course 60hI-60hNI	1.19113	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)	0.98587	0.722
transgenic ySAMdc/azygous control (breaker)	0.79021	0.139
transgenic ySAMdc/azygous control (red)	0.95925	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91532	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50997	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15323	0.105
Manapal/WT (break)	1.01122	0.381
Manapal/WT (red)	1.46297	0.137