Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92206	0.475
27DAP/17DAP	0.94669	0.919
39DAP/27DAP	0.98671	0.782
41DAP/39DAP	0.97466	0.795
42DAP/41DAP	1.03559	0.992
43DAP/42DAP	0.92121	0.554
47DAP/43DAP	0.87868	0.58
52DAP/47DAP	1.11142	0.763
57DAP/52DAP	1.00244	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90437	0.224
17DAP/reference	0.91269	0.24
27DAP/reference	0.95326	0.147
39DAP/reference	0.94081	0.333
41DAP/reference	0.94971	0.267
42DAP/reference	0.95476	0.182
43DAP/reference	0.92619	0.163
47DAP/reference	0.9604	0.191
52DAP/reference	0.90625	0.089
57DAP/reference	1.08973	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99834	0.899
27DAP/17DAP	0.96923	0.614
39DAP/27DAP	0.98136	0.812
41DAP/39DAP	0.99376	1
42DAP/41DAP	0.98396	0.803
43DAP/42DAP	1.00802	0.627
47DAP/43DAP	1.01694	0.873
52DAP/47DAP	0.98249	0.902
57DAP/52DAP	0.98956	0.756
57DAP/7DAP	0.92165	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75035	0.054
17DAP/reference	0.74388	0.011
27DAP/reference	0.77236	0.01
39DAP/reference	0.74946	0.011
41DAP/reference	0.82914	0.011
42DAP/reference	0.84893	0.011
43DAP/reference	0.72235	0.011
47DAP/reference	0.74506	0.03
52DAP/reference	0.71441	0.01
57DAP/reference	0.67081	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97073	0.669
17DAP/reference	0.87866	0.099
27DAP/reference	0.91941	0.229
39DAP/reference	0.82815	0.015
41DAP/reference	0.85828	0.133
42DAP/reference	0.95094	0.108
43DAP/reference	0.77634	0.027
47DAP/reference	1.04951	0.247
52DAP/reference	0.77979	0.006
57DAP/reference	0.8296	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77369	0.028
17DAP/reference	0.90877	0.348
27DAP/reference	0.78278	0.035
39DAP/reference	0.75068	0.008
41DAP/reference	0.74374	0.018
42DAP/reference	0.72168	0.015
43DAP/reference	0.79542	0.016
47DAP/reference	0.93343	0.125
52DAP/reference	0.76689	0.089
57DAP/reference	0.78066	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00806	0.966
26DAP/20DAP	0.99827	1
34DAP/26DAP	0.99394	1
51DAP/34DAP	0.98643	0.883
52DAP/51DAP	1.06901	0.367
53DAP/52DAP	1.02284	0.895
55DAP/53DAP	1.01012	0.982
57DAP/55DAP	1.12221	0.818
62DAP/57DAP	1.12215	0.515
68DAP/62DAP	0.84306	0.722
68DAP/14DAP	1.2853	0.223

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97919	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06488	0.666
Mature Green Tomato/Ripe Tomato	0.9436	0.569
Immature Eggplant/Mature Eggplant	1.30644	0.116
Ripe Pepper/Ripe Tomato	1.9011	1
Mature Eggplant/Ripe Tomato	1.26864

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94485	0.944
1-1-2/M82	0.92673	1
12-2/M82	0.93367	0.955
12-4/M82	1.00585	1
1-3/M82	0.9928	1
2-1-1/M82	0.83112	0.465
2-1/M82	1.35658	1
2-6/M82	0.94404	1
3-2/M82	0.93044	1
4-1-1/M82	0.98318	1
4-1/M82	0.93611	1
4-3-2/M82	1.14737	1
4-3/M82	0.97719	0.72
5-3/M82	0.95852	1
6-2/M82	0.93662	1
6-3/M82	1.01873	1
7-1/M82	1.01315	1
7-2/M82	0.99621	1
9-3-2/M82	0.92709	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.74346	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93182	1
IL12-4/WTpooled	1.07061	1
IL1-4/WTpooled	0.78687
WT/WTpooled	1.0429	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92778	1
DC3000/delta hrp 6h	1.36515	1
DC3000/delta hrp 12h	1.01936	1
DC3000/delta hrp 24h	0.98558	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11087	0.121
DC3000 delta B/DC3000 delta AB	1.18613	0.249

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.11751	0.374
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.77104	0.348
transgenic ySAMdc/azygous control (breaker)	1.53659	0.248
transgenic ySAMdc/azygous control (red)	1.38841	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01111	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.24175	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88744	1
Manapal/WT (break)	1.00358	1
Manapal/WT (red)	0.81523	0.36