Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1467	0.681
27DAP/17DAP	0.52947	0.036
39DAP/27DAP	0.64961	0.286
41DAP/39DAP	0.65219	0.072
42DAP/41DAP	0.70052	0.774
43DAP/42DAP	1.61286	0.466
47DAP/43DAP	0.5231	0.052
52DAP/47DAP	1.18893	0.739
57DAP/52DAP	1.04613	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79	0.136
17DAP/reference	0.5567	0.009
27DAP/reference	0.46646	0.03
39DAP/reference	0.46573	0.016
41DAP/reference	0.41293	0.016
42DAP/reference	0.4058	0.001
43DAP/reference	0.37294	0.015
47DAP/reference	0.36158	0.001
52DAP/reference	0.37072	0.015
57DAP/reference	0.42363	0.006

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.9336	0.036
27DAP/17DAP	0.74274	0.279
39DAP/27DAP	0.41811	0.035
41DAP/39DAP	1.65412	0.039
42DAP/41DAP	0.73659	0.022
43DAP/42DAP	0.62045	0.022
47DAP/43DAP	0.91866	0.569
52DAP/47DAP	0.72914	0.212
57DAP/52DAP	0.80669	0.39
57DAP/7DAP	0.2966	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10803	0.491
17DAP/reference	0.78268	0.039
27DAP/reference	0.59803	0.01
39DAP/reference	0.48943	0.011
41DAP/reference	0.41373	0.011
42DAP/reference	0.38378	0.01
43DAP/reference	0.36138	0.011
47DAP/reference	0.31812	0.026
52DAP/reference	0.42687	0.012
57DAP/reference	0.44691	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.44818	0.008
17DAP/reference	0.49699	0.009
27DAP/reference	0.52087	0.019
39DAP/reference	0.33073	0.009
41DAP/reference	0.40438	0.005
42DAP/reference	0.40109	0.01
43DAP/reference	0.21211	0.002
47DAP/reference	0.29041	0.007
52DAP/reference	0.21876	0.003
57DAP/reference	0.18981	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.81292	0.018
17DAP/reference	1.666	0.111
27DAP/reference	1.25861	0.049
39DAP/reference	0.94273	0.393
41DAP/reference	0.76911	0.031
42DAP/reference	0.57963	0.025
43DAP/reference	0.53037	0.017
47DAP/reference	0.34443	0.004
52DAP/reference	0.33352	0.047
57DAP/reference	1.03809	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82702	0.807
26DAP/20DAP	1.08664	0.941
34DAP/26DAP	0.79176	0.294
51DAP/34DAP	0.37551	0.049
52DAP/51DAP	1.00569	1
53DAP/52DAP	0.59367	0.05
55DAP/53DAP	0.68476	0.043
57DAP/55DAP	0.95611	0.828
62DAP/57DAP	1.71404	0.081
68DAP/62DAP	0.70741	0.065
68DAP/14DAP	0.78731	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60237	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.70992	0.058
Mature Green Tomato/Ripe Tomato	3.82203	0.015
Immature Eggplant/Mature Eggplant	0.44209	0.064
Ripe Pepper/Ripe Tomato	2.52441	0.258
Mature Eggplant/Ripe Tomato	5.00823	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.99228	1
12-2/M82	N/A	N/A
12-4/M82	0.8148	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.67487
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.94564
4-1-1/M82	1.45402	0.932
4-1/M82	N/A	N/A
4-3-2/M82	1.70811
4-3/M82	1.38399	0.268
5-3/M82	1.49639	1
6-2/M82	1.41094	0.253
6-3/M82	1.06468	1
7-1/M82	1.08392
7-2/M82	1.0866	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.34426	0.277
IL2-6/WTpooled	1.10009
IL7-5/WTpooled	1.17341	1
IL7-3/WTpooled	1.23622
IL12-4/WTpooled	1.12033	0.737
IL1-4/WTpooled	1.22431	1
WT/WTpooled	0.95076	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	1.0025	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88358	0.849
DC3000/delta hrp 6h	0.9483	0.95
DC3000/delta hrp 12h	0.86069	1
DC3000/delta hrp 24h	1.02125	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.70641	0.038
DC3000 delta B/DC3000 delta AB	0.64362	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97909	1
Exp 36h	0.95716	0.749
Exp 60h	0.87774	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.005	1
Var 0h	0.9886	1
Var 12h I row2-row1	0.98583	1
Var 12h NI row2-row1	1.04456	1
Var 36h I row2-row1	0.91225	0.805
Var 36h NI row2-row1	1.00761	1
Var 60h I row2-row1	1.42499	0.543
Var 60h NI row2-row1	0.95115	0.932
Time course 0hI-0hNI	1.00747	1
Time course 12hI-12hNI	1.06112	0.56
Time course 36hI-36hNI	0.94686	0.389
Time course 60hI-60hNI	0.31164	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)	1.04542	0.863
transgenic ySAMdc/azygous control (breaker)	1.96812	0.161
transgenic ySAMdc/azygous control (red)	1.1061	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.50526	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.7186	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.83634	0.087
Manapal/WT (break)	3.38025	0.123
Manapal/WT (red)	0.98579	0.863