Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21339	0.602
27DAP/17DAP	1.15468	0.849
39DAP/27DAP	0.79098	0.474
41DAP/39DAP	1.66445	0.153
42DAP/41DAP	1.18071	1
43DAP/42DAP	0.91566	0.854
47DAP/43DAP	1.27984	0.527
52DAP/47DAP	1.23012	0.637
57DAP/52DAP	0.99018	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93727	0.3
17DAP/reference	1.00855	0.907
27DAP/reference	0.96149	0.286
39DAP/reference	0.95217	0.6
41DAP/reference	1.14179	0.102
42DAP/reference	0.96054	0.169
43DAP/reference	0.99194	0.82
47DAP/reference	0.92147	0.03
52DAP/reference	0.80671	0.073
57DAP/reference	0.78536	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01021	1
27DAP/17DAP	0.97003	0.537
39DAP/27DAP	1.01458	0.799
41DAP/39DAP	1.12941	0.753
42DAP/41DAP	0.99125	0.864
43DAP/42DAP	1.01633	0.627
47DAP/43DAP	0.96093	0.647
52DAP/47DAP	0.99342	0.951
57DAP/52DAP	1.08804	0.405
57DAP/7DAP	1.06148	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99364	0.682
17DAP/reference	0.84665	0.056
27DAP/reference	0.84245	0.028
39DAP/reference	0.75699	0.017
41DAP/reference	0.83101	0.043
42DAP/reference	0.88007	0.048
43DAP/reference	0.8576	0.061
47DAP/reference	0.90642	0.168
52DAP/reference	0.78204	0.012
57DAP/reference	0.75796	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09838	0.304
17DAP/reference	0.89822	0.041
27DAP/reference	0.83464	0.093
39DAP/reference	0.9307	0.298
41DAP/reference	0.8117	0.042
42DAP/reference	0.79691	0.022
43DAP/reference	0.87807	0.062
47DAP/reference	0.89594	0.026
52DAP/reference	0.94	0.187
57DAP/reference	1.01227	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91618	0.127
17DAP/reference	0.92765	0.444
27DAP/reference	0.87784	0.126
39DAP/reference	0.81988	0.017
41DAP/reference	0.89436	0.07
42DAP/reference	0.77439	0.049
43DAP/reference	0.73927	0.049
47DAP/reference	0.95586	0.371
52DAP/reference	0.82178	0.174
57DAP/reference	0.77226	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01439	1
26DAP/20DAP	0.88368	0.228
34DAP/26DAP	1.015	1
51DAP/34DAP	0.90392	0.341
52DAP/51DAP	1.01991	0.783
53DAP/52DAP	1.09207	0.284
55DAP/53DAP	0.94437	0.563
57DAP/55DAP	1.17653	0.881
62DAP/57DAP	1.07116	0.902
68DAP/62DAP	1.17857	0.448
68DAP/14DAP	0.94055	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85883	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9159	0.563
Mature Green Tomato/Ripe Tomato	0.86317	0.347
Immature Eggplant/Mature Eggplant	0.87254	0.223
Ripe Pepper/Ripe Tomato	1.32789	1
Mature Eggplant/Ripe Tomato	0.72255	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96382	0.944
1-1-2/M82	0.93429	1
12-2/M82	1.14756	1
12-4/M82	0.94956	1
1-3/M82	0.86551	0.441
2-1-1/M82	0.95818	0.92
2-1/M82	0.98984	1
2-6/M82	1.25583	0.505
3-2/M82	1.05836	1
4-1-1/M82	0.94024	0.833
4-1/M82	1.00221	1
4-3-2/M82	1.08437	0.241
4-3/M82	0.90943	1
5-3/M82	0.91826	0.49
6-2/M82	1.00945	1
6-3/M82	1.00377	1
7-1/M82	0.98969	1
7-2/M82	1.06316	1
9-3-2/M82	0.99821

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89451	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.40082	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.31541	0.444
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	0.96664	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91274	1
DC3000/delta hrp 6h	1.20927	1
DC3000/delta hrp 12h	1.15688	1
DC3000/delta hrp 24h	1.181	0.058

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99829	1
DC3000 delta B/DC3000 delta AB	1.00255	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04567	1
Exp 36h	1.15853	1
Exp 60h	0.98688	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96672	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.1343	0.242
Var 12h NI row2-row1	0.98066	1
Var 36h I row2-row1	0.96784	1
Var 36h NI row2-row1	0.90431	0.584
Var 60h I row2-row1	1.31363	1
Var 60h NI row2-row1	1.22211	0.904
Time course 0hI-0hNI	1.04197	0.833
Time course 12hI-12hNI	1.0347	0.773
Time course 36hI-36hNI	0.87478	0.035
Time course 60hI-60hNI	0.91505	0.319

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)	1.61755	0.212
transgenic ySAMdc/azygous control (breaker)	1.06882	1
transgenic ySAMdc/azygous control (red)	1.54995	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01462	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84344	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62831	1
Manapal/WT (break)	1.13222	1
Manapal/WT (red)	0.4566	0.181