Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.15.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.96442	0.088
27DAP/17DAP	1.3667	0.688
39DAP/27DAP	2.10029	0.03
41DAP/39DAP	0.7798	0.229
42DAP/41DAP	1.29802	0.802
43DAP/42DAP	1.1059	1
47DAP/43DAP	0.61471	0.106
52DAP/47DAP	0.96719	0.821
57DAP/52DAP	0.91157	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95588	0.352
17DAP/reference	0.9432	0.393
27DAP/reference	0.88553	0.075
39DAP/reference	0.9603	0.554
41DAP/reference	0.82312	0.085
42DAP/reference	1.23268	0.058
43DAP/reference	0.9751	0.691
47DAP/reference	1.09197	0.794
52DAP/reference	0.91829	0.189
57DAP/reference	1.0882	0.195

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81411	0.27
27DAP/17DAP	1.16183	0.735
39DAP/27DAP	1.22949	0.691
41DAP/39DAP	0.8888	0.645
42DAP/41DAP	0.91614	0.591
43DAP/42DAP	1.03038	1
47DAP/43DAP	1.3236	0.221
52DAP/47DAP	0.96462	0.886
57DAP/52DAP	0.796	0.651
57DAP/7DAP	0.96259	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.12627	0.041
17DAP/reference	1.53122	0.028
27DAP/reference	2.55008	0.006
39DAP/reference	1.87857	0.012
41DAP/reference	2.19256	0.012
42DAP/reference	2.79421	0.014
43DAP/reference	2.64298	0.006
47DAP/reference	2.66708	0.039
52DAP/reference	16.23	0.007
57DAP/reference	10.6923	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00869	0.831
17DAP/reference	0.95917	0.51
27DAP/reference	1.09302	0.961
39DAP/reference	1.04217	0.722
41DAP/reference	0.99647	0.615
42DAP/reference	1.1715	0.359
43DAP/reference	0.74065	0.051
47DAP/reference	0.87794	0.021
52DAP/reference	1.09536	0.444
57DAP/reference	1.01534	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.84723	0.019
17DAP/reference	0.88193	0.143
27DAP/reference	1.52592	0.023
39DAP/reference	5.61514	0.016
41DAP/reference	3.90984	0.009
42DAP/reference	2.18696	0.011
43DAP/reference	1.86461	0.029
47DAP/reference	1.29394	0.008
52DAP/reference	2.76066	0.032
57DAP/reference	2.29806	0.058

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11133	0.966
26DAP/20DAP	1.04178	0.941
34DAP/26DAP	0.94007	0.972
51DAP/34DAP	1.08719	0.84
52DAP/51DAP	0.98557	1
53DAP/52DAP	0.88642	0.435
55DAP/53DAP	0.97731	0.82
57DAP/55DAP	0.93449	0.715
62DAP/57DAP	1.61704	0.723
68DAP/62DAP	1.07947	0.863
68DAP/14DAP	0.43191	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92965	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.28539	1
12-2/M82	N/A	N/A
12-4/M82	2.83292
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	N/A	N/A
3-2/M82	0.97841
4-1-1/M82	N/A	N/A
4-1/M82	2.31722
4-3-2/M82	1.91627
4-3/M82	N/A	N/A
5-3/M82	0.90672	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.54742
7-2/M82	1.62563
9-3-2/M82	1.57172	1

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	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.97677

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	0.8506

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95961	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.15325	1
DC3000/delta hrp 24h	1.00329	0.575

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.36304	0.229
Exp 60h	1.14845	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.14085
Var 0h	0.84981	0.933
Var 12h I row2-row1	0.96933
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.91577
Var 36h NI row2-row1	0.97332
Var 60h I row2-row1	0.94149
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.7126	0.161
Time course 12hI-12hNI	0.7588
Time course 36hI-36hNI	0.95742	0.611
Time course 60hI-60hNI	0.78311	0.161

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)	1.56207	0.571
transgenic ySAMdc/azygous control (breaker)	1.22439	0.248
transgenic ySAMdc/azygous control (red)	1.02719	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93248	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95459	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89724	1
Manapal/WT (break)	0.62377	1
Manapal/WT (red)	1.20961	1