Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.10.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66289	0.023
27DAP/17DAP	0.49481	0.031
39DAP/27DAP	0.51829	0.286
41DAP/39DAP	0.9054	0.627
42DAP/41DAP	0.91631	1
43DAP/42DAP	0.79533	0.77
47DAP/43DAP	1.05252	0.873
52DAP/47DAP	0.82715	0.559
57DAP/52DAP	0.8372	0.729

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21566	0.265
17DAP/reference	0.31899	0.007
27DAP/reference	0.32176	0.012
39DAP/reference	0.39115	0.014
41DAP/reference	0.28807	0.009
42DAP/reference	0.41055	0.001
43DAP/reference	0.32715	0.013
47DAP/reference	0.41059	0.001
52DAP/reference	0.27838	0.014
57DAP/reference	0.47218	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03113	1
27DAP/17DAP	0.82857	0.339
39DAP/27DAP	0.62451	0.054
41DAP/39DAP	1.41983	0.362
42DAP/41DAP	0.91123	0.379
43DAP/42DAP	0.64455	0.025
47DAP/43DAP	0.74971	0.272
52DAP/47DAP	1.01754	0.982
57DAP/52DAP	0.88633	0.461
57DAP/7DAP	0.45286	0.143

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59757	0.058
17DAP/reference	0.46013	0.011
27DAP/reference	0.4589	0.01
39DAP/reference	0.3695	0.011
41DAP/reference	1.13833	0.489
42DAP/reference	0.3713	0.01
43DAP/reference	0.32039	0.01
47DAP/reference	0.3107	0.03
52DAP/reference	0.33277	0.009
57DAP/reference	0.31267	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16633	0.597
17DAP/reference	0.42904	0.003
27DAP/reference	0.35984	0.006
39DAP/reference	0.26588	0.01
41DAP/reference	0.81655	0.127
42DAP/reference	0.34962	0.011
43DAP/reference	0.21753	0.002
47DAP/reference	0.38761	0.007
52DAP/reference	0.32646	0.004
57DAP/reference	0.30661	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74813	0.167
17DAP/reference	0.77813	0.221
27DAP/reference	0.40645	0.023
39DAP/reference	0.48996	0.009
41DAP/reference	0.33745	0.015
42DAP/reference	0.36913	0.014
43DAP/reference	0.35792	0.016
47DAP/reference	0.16622	0.004
52DAP/reference	0.28081	0.047
57DAP/reference	0.31191	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.70818	0.961
26DAP/20DAP	1.03794	1
34DAP/26DAP	0.92368	0.753
51DAP/34DAP	0.79782	0.41
52DAP/51DAP	1.03429	0.873
53DAP/52DAP	2.06246	0.034
55DAP/53DAP	0.60201
57DAP/55DAP	0.9696	0.817
62DAP/57DAP	1.12028	0.8
68DAP/62DAP	1.00509	0.914
68DAP/14DAP	0.62443	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68063	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.31817
Mature Green Tomato/Ripe Tomato	12.79	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.90244

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13259
1-1-2/M82	1.03616
12-2/M82	N/A	N/A
12-4/M82	1.0477
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.97066
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	N/A	N/A
5-3/M82	0.74738
6-2/M82	N/A	N/A
6-3/M82	0.85935
7-1/M82	N/A	N/A
7-2/M82	1.20636
9-3-2/M82	N/A	N/A

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	0.77755	0.418
IL12-4/WTpooled	0.87627	0.71
IL1-4/WTpooled	1.05532	1
WT/WTpooled	1.01007	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	0.87969	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96849	1
DC3000/delta hrp 6h	1.28482	0.609
DC3000/delta hrp 12h	1.08847
DC3000/delta hrp 24h	2.79095	0.271

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.42628	0.045
DC3000 delta B/DC3000 delta AB	1.06048	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00992	1
Exp 36h	0.69899	0.504
Exp 60h	0.6024	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99309	1
Var 0h	1.25136	0.782
Var 12h I row2-row1	0.78886	0.363
Var 12h NI row2-row1	0.94537	0.627
Var 36h I row2-row1	0.81884	1
Var 36h NI row2-row1	1.1379	1
Var 60h I row2-row1	1.36536	0.543
Var 60h NI row2-row1	1.00875	1
Time course 0hI-0hNI	0.97773	0.911
Time course 12hI-12hNI	0.99633	1
Time course 36hI-36hNI	0.98615	0.621
Time course 60hI-60hNI	0.20313	0.006

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)	1.06458	0.921
transgenic ySAMdc/azygous control (breaker)	1.99103	0.248
transgenic ySAMdc/azygous control (red)	0.8724	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81893	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.62196	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.54798	0.093
Manapal/WT (break)	2.08784	0.14
Manapal/WT (red)	0.99229	0.863