Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.11.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93152	0.627
27DAP/17DAP	1.04105	1
39DAP/27DAP	0.76451	0.447
41DAP/39DAP	1.72314	0.285
42DAP/41DAP	1.17015	0.958
43DAP/42DAP	0.88322	0.801
47DAP/43DAP	0.81966	0.449
52DAP/47DAP	1.24899	0.588
57DAP/52DAP	0.97519	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0067	1
17DAP/reference	1.01792	0.606
27DAP/reference	0.97994	0.595
39DAP/reference	0.84092	0.324
41DAP/reference	0.98187	0.814
42DAP/reference	0.93495	0.075
43DAP/reference	1.00779	0.957
47DAP/reference	0.95109	0.116
52DAP/reference	1.18732	0.524
57DAP/reference	0.93666	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91194	0.245
27DAP/17DAP	1.04147	0.893
39DAP/27DAP	1.00732	0.832
41DAP/39DAP	1.02288	1
42DAP/41DAP	0.99351	0.887
43DAP/42DAP	0.97821	0.729
47DAP/43DAP	1.0376	0.817
52DAP/47DAP	1.00517	1
57DAP/52DAP	0.9918	0.813
57DAP/7DAP	1.0444	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91296	0.146
17DAP/reference	0.86015	0.017
27DAP/reference	0.75468	0.01
39DAP/reference	0.92872	0.095
41DAP/reference	0.93492	0.16
42DAP/reference	0.90323	0.058
43DAP/reference	0.82261	0.016
47DAP/reference	0.85508	0.079
52DAP/reference	0.81734	0.014
57DAP/reference	0.89089	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05133	0.373
17DAP/reference	1.01319	1
27DAP/reference	0.93269	0.381
39DAP/reference	0.90616	0.089
41DAP/reference	0.83133	0.051
42DAP/reference	0.86959	0.212
43DAP/reference	0.96436	0.486
47DAP/reference	0.97208	0.328
52DAP/reference	1.04425	0.343
57DAP/reference	1.02477	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9082	0.135
17DAP/reference	0.97227	0.615
27DAP/reference	0.88382	0.043
39DAP/reference	0.82781	0.015
41DAP/reference	0.87465	0.033
42DAP/reference	0.77623	0.023
43DAP/reference	0.87001	0.081
47DAP/reference	0.91347	0.224
52DAP/reference	0.75022	0.095
57DAP/reference	0.58791	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95105	1
26DAP/20DAP	0.93547	0.512
34DAP/26DAP	0.98986	1
51DAP/34DAP	1.04076	0.829
52DAP/51DAP	0.97894	1
53DAP/52DAP	1.08223	0.458
55DAP/53DAP	1.0761	0.534
57DAP/55DAP	0.90214	0.623
62DAP/57DAP	0.94138	0.994
68DAP/62DAP	1.21972	0.557
68DAP/14DAP	0.897	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96406	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.0462	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	15.5321	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02449	1
1-1-2/M82	0.98074	1
12-2/M82	1.01226	1
12-4/M82	0.92693	1
1-3/M82	0.93354	0.501
2-1-1/M82	1.15402	0.764
2-1/M82	1.43589
2-6/M82	1.11389	0.695
3-2/M82	0.91688	0.752
4-1-1/M82	0.95687	1
4-1/M82	0.93397	1
4-3-2/M82	0.88233	1
4-3/M82	0.94967	1
5-3/M82	0.98515	1
6-2/M82	1.00231	1
6-3/M82	0.97144	1
7-1/M82	1.01218
7-2/M82	1.09022	1
9-3-2/M82	0.7865	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.34051	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.62276	0.362
IL12-4/WTpooled	0.93739	1
IL1-4/WTpooled	0.99054	1
WT/WTpooled	1.16092	0.89

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	1.05961	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93284	0.664
DC3000/delta hrp 6h	1.36523	0.631
DC3000/delta hrp 12h	1.0442	1
DC3000/delta hrp 24h	0.99823	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03531	0.384
DC3000 delta B/DC3000 delta AB	1.09048	0.336

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85025	0.328
Exp 36h	1.35964	1
Exp 60h	0.63941	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00638	1
Var 0h	1.28829	1
Var 12h I row2-row1	1.13131	0.204
Var 12h NI row2-row1	0.76315	0.713
Var 36h I row2-row1	0.70183	0.805
Var 36h NI row2-row1	0.99038	0.852
Var 60h I row2-row1	1.34187	0.562
Var 60h NI row2-row1	1.20818	0.904
Time course 0hI-0hNI	0.99205	1
Time course 12hI-12hNI	0.94451	0.47
Time course 36hI-36hNI	0.76302	0.023
Time course 60hI-60hNI	0.96266	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)	1.06275	0.397
transgenic ySAMdc/azygous control (breaker)	1.06144	1
transgenic ySAMdc/azygous control (red)	1.13791	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97133	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05588	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60357	0.172
Manapal/WT (break)	0.99811	1
Manapal/WT (red)	N/A	N/A