Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91742	0.617
27DAP/17DAP	2.38022	0.148
39DAP/27DAP	1.53436	0.476
41DAP/39DAP	0.63014	0.183
42DAP/41DAP	0.91586	1
43DAP/42DAP	1.22571	0.861
47DAP/43DAP	1.09078	0.736
52DAP/47DAP	1.27275	0.691
57DAP/52DAP	0.97188	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82026	0.041
17DAP/reference	0.8016	0.091
27DAP/reference	0.90327	0.24
39DAP/reference	0.76149	0.013
41DAP/reference	0.71572	0.009
42DAP/reference	0.86075	0.006
43DAP/reference	0.88638	0.036
47DAP/reference	0.86796	0.03
52DAP/reference	1.08386	0.633
57DAP/reference	1.03453	0.6

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01224	0.763
27DAP/17DAP	1.06478	0.973
39DAP/27DAP	0.98788	0.852
41DAP/39DAP	1.28656	0.214
42DAP/41DAP	1.0288	0.865
43DAP/42DAP	1.01383	1
47DAP/43DAP	1.23916	0.206
52DAP/47DAP	2.7746	0.033
57DAP/52DAP	3.25331	0.029
57DAP/7DAP	1.17271	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99755	0.758
17DAP/reference	1.09449	0.477
27DAP/reference	1.01588	1
39DAP/reference	1.17312	0.175
41DAP/reference	1.18287	0.165
42DAP/reference	1.30511	0.046
43DAP/reference	1.28373	0.043
47DAP/reference	1.13573	0.604
52DAP/reference	1.23551	0.017
57DAP/reference	1.25436	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74147	0.007
17DAP/reference	0.63053	0.004
27DAP/reference	0.77662	0.018
39DAP/reference	0.8679	0.093
41DAP/reference	0.90342	0.145
42DAP/reference	0.8155	0.039
43DAP/reference	0.74496	0.012
47DAP/reference	0.75179	0.01
52DAP/reference	0.94644	0.171
57DAP/reference	0.6953	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88954	0.197
17DAP/reference	0.95494	0.56
27DAP/reference	1.1745	0.312
39DAP/reference	1.11707	0.613
41DAP/reference	0.96617	0.459
42DAP/reference	0.87682	0.087
43DAP/reference	0.91115	0.125
47DAP/reference	0.83429	0.072
52DAP/reference	1.09341	0.979
57DAP/reference	1.27459	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13824	0.966
26DAP/20DAP	1.04145	1
34DAP/26DAP	0.89494	0.803
51DAP/34DAP	1.01995	0.883
52DAP/51DAP	1.23741	0.186
53DAP/52DAP	1.17214	1
55DAP/53DAP	1.50544	0.055
57DAP/55DAP	1.0389	0.911
62DAP/57DAP	1.02681	1
68DAP/62DAP	2.36814	0.242
68DAP/14DAP	1.98073	0.087

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97167	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50017	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.19754	0.05
Ripe Pepper/Ripe Tomato	4.40019	1
Mature Eggplant/Ripe Tomato	8.94816	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.77575
12-2/M82	N/A	N/A
12-4/M82	1.23718
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	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	0.56969	0.578
5-3/M82	0.91489	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.83442
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86242	0.321
IL2-6/WTpooled	0.98776	1
IL7-5/WTpooled	0.88818	0.559
IL7-3/WTpooled	1.25124
IL12-4/WTpooled	1.30836	0.737
IL1-4/WTpooled	0.8817	0.699
WT/WTpooled	0.87193	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	1.03733	0.921
DC3000/delta hrp 6h	0.9433	0.95
DC3000/delta hrp 12h	0.78558	1
DC3000/delta hrp 24h	3.87387	0.028

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	1.06547	1
Exp 36h	0.98059	1
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	0.975
Var 0h	0.70312	0.98
Var 12h I row2-row1	0.66809	0.418
Var 12h NI row2-row1	0.66406
Var 36h I row2-row1	1.02188	1
Var 36h NI row2-row1	1.04608	1
Var 60h I row2-row1	0.47151	0.582
Var 60h NI row2-row1	1.18044	0.904
Time course 0hI-0hNI	1.03158	0.852
Time course 12hI-12hNI	0.89118	0.298
Time course 36hI-36hNI	1.00205	0.811
Time course 60hI-60hNI	1.30769	0.053

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)	1.80243	0.297
transgenic ySAMdc/azygous control (breaker)	0.53883	0.15
transgenic ySAMdc/azygous control (red)	1.31161	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64724	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91982	1
Manapal/WT (break)	1.0059	1
Manapal/WT (red)	0.92081	0.607