Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.19.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94323	0.664
27DAP/17DAP	1.23154	0.845
39DAP/27DAP	1.47729	0.329
41DAP/39DAP	1.08009	0.929
42DAP/41DAP	0.65495	0.397
43DAP/42DAP	0.92576	0.761
47DAP/43DAP	0.79914	0.369
52DAP/47DAP	0.97665	0.903
57DAP/52DAP	1.03999	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06553	1
17DAP/reference	1.04534	0.606
27DAP/reference	1.0219	0.569
39DAP/reference	1.23655	0.114
41DAP/reference	1.11063	0.158
42DAP/reference	1.15909	0.108
43DAP/reference	1.01361
47DAP/reference	1.19864	0.167
52DAP/reference	1.48737	0.007
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02507	1
27DAP/17DAP	0.96539	0.854
39DAP/27DAP	1.21264	0.249
41DAP/39DAP	1.16265	0.801
42DAP/41DAP	1.00958	0.907
43DAP/42DAP	0.81888	0.068
47DAP/43DAP	1.15831	0.475
52DAP/47DAP	1.09779	0.724
57DAP/52DAP	1.08632	0.654
57DAP/7DAP	0.85156	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28669	0.157
17DAP/reference	1.47023	0.03
27DAP/reference	1.26633	0.03
39DAP/reference	1.53533	0.044
41DAP/reference	1.51599	0.05
42DAP/reference	1.47189	0.008
43DAP/reference	1.5301	0.016
47DAP/reference	1.50658	0.158
52DAP/reference	1.61203	0.007
57DAP/reference	1.62574	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02751	0.952
17DAP/reference	1.15906	0.243
27DAP/reference	1.08218	0.427
39DAP/reference	1.1155	0.463
41DAP/reference	0.9508	0.237
42DAP/reference	0.9981	0.655
43DAP/reference	1.076	0.89
47DAP/reference	1.01027	1
52DAP/reference	1.15689	0.145
57DAP/reference	1.04719	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14954	0.207
17DAP/reference	1.05346	0.977
27DAP/reference	1.41523	0.027
39DAP/reference	1.4816	0.018
41DAP/reference	1.17245	0.343
42DAP/reference	1.22492	0.024
43DAP/reference	1.20646	0.326
47DAP/reference	1.19816	0.14
52DAP/reference	1.67827	0.09
57DAP/reference	1.72213	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86755	1
26DAP/20DAP	1.06994	1
34DAP/26DAP	1.12614	1
51DAP/34DAP	0.83859	0.298
52DAP/51DAP	1.36674	0.073
53DAP/52DAP	0.88848	0.365
55DAP/53DAP	1.11501	0.134
57DAP/55DAP	0.74629	0.135
62DAP/57DAP	0.96493	0.871
68DAP/62DAP	1.26061	0.455
68DAP/14DAP	0.91886	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33833	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67544	0.19
Mature Green Tomato/Ripe Tomato	1.2396	0.523
Immature Eggplant/Mature Eggplant	0.96637	0.912
Ripe Pepper/Ripe Tomato	0.74368	1
Mature Eggplant/Ripe Tomato	1.2016	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01468	1
1-1-2/M82	1.05162	1
12-2/M82	0.95552	0.955
12-4/M82	1.16177	1
1-3/M82	1.06664	0.277
2-1-1/M82	1.00235	1
2-1/M82	0.9814	1
2-6/M82	1.01009	1
3-2/M82	1.0412	0.463
4-1-1/M82	0.97816	1
4-1/M82	1.52425	1
4-3-2/M82	1.19371	1
4-3/M82	0.95798	1
5-3/M82	0.97989	1
6-2/M82	0.94756	1
6-3/M82	1.01586	1
7-1/M82	1.08192	0.598
7-2/M82	1.01668	1
9-3-2/M82	1.5022	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.59667	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.99115	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.43184	0.426
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	1.03318	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03787	0.75
DC3000/delta hrp 6h	1.08895	1
DC3000/delta hrp 12h	1.11883	1
DC3000/delta hrp 24h	0.99991	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20892	0.076
DC3000 delta B/DC3000 delta AB	1.28806	0.154

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94544	1
Exp 36h	0.84252	0.699
Exp 60h	1.19809	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98767	1
Var 0h	0.50426	1
Var 12h I row2-row1	0.99679	1
Var 12h NI row2-row1	1.24235	0.649
Var 36h I row2-row1	1.10586	0.742
Var 36h NI row2-row1	0.89203	0.61
Var 60h I row2-row1	0.74427	0.439
Var 60h NI row2-row1	0.8484	0.69
Time course 0hI-0hNI	1.08156	0.719
Time course 12hI-12hNI	1.0769	0.536
Time course 36hI-36hNI	1.62081	0.005
Time course 60hI-60hNI	1.87804	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)	0.97748	0.454
transgenic ySAMdc/azygous control (breaker)	1.08692	0.248
transgenic ySAMdc/azygous control (red)	0.90754	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13317	0.1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73221	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78222	0.172
Manapal/WT (break)	1.15108	1
Manapal/WT (red)	1.2815	0.222