Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.3.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	11.7528	0.016
27DAP/17DAP	3.43646	0.047
39DAP/27DAP	1.55629	0.155
41DAP/39DAP	0.68731	0.103
42DAP/41DAP	0.6431	0.774
43DAP/42DAP	1.31733	0.768
47DAP/43DAP	0.48204	0.049
52DAP/47DAP	1.11448	0.941
57DAP/52DAP	1.14149	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.42595	0.027
17DAP/reference	0.8454	0.24
27DAP/reference	1.82135	0.03
39DAP/reference	1.75817	0.013
41DAP/reference	1.67404	0.012
42DAP/reference	1.71767	0.001
43DAP/reference	0.83469
47DAP/reference	1.91544	0.001
52DAP/reference	0.7578	0.023
57DAP/reference	0.3921

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	6.34832	0.036
27DAP/17DAP	3.70809	0.021
39DAP/27DAP	1.12074	0.953
41DAP/39DAP	1.27935	0.934
42DAP/41DAP	1.10504	0.92
43DAP/42DAP	1.49791	0.122
47DAP/43DAP	0.72765	0.048
52DAP/47DAP	1.8484	0.105
57DAP/52DAP	0.82618	0.384
57DAP/7DAP	3.38164	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95745	0.495
17DAP/reference	1.57591	0.008
27DAP/reference	2.13653	0.011
39DAP/reference	2.88665	0.006
41DAP/reference	3.10506	0.008
42DAP/reference	2.38514	0.018
43DAP/reference	1.23579	0.788
47DAP/reference	1.23712	0.582
52DAP/reference	0.32839	0.009
57DAP/reference	0.3198	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.47393	0.005
17DAP/reference	1.52539	0.007
27DAP/reference	2.86388	0.012
39DAP/reference	2.82962	0.011
41DAP/reference	1.79213	0.005
42DAP/reference	2.74198	0.007
43DAP/reference	1.50658	0.447
47DAP/reference	1.84318	0.011
52DAP/reference	2.91825	0.006
57DAP/reference	1.04363	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.40125	0.034
17DAP/reference	0.7474	0.078
27DAP/reference	2.03808	0.018
39DAP/reference	2.32404	0.008
41DAP/reference	1.55315	0.033
42DAP/reference	1.43585	0.018
43DAP/reference	1.63345	0.011
47DAP/reference	1.05171	0.847
52DAP/reference	1.73637	0.233
57DAP/reference	0.88672	0.059

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1121	0.966
26DAP/20DAP	1.18578	0.273
34DAP/26DAP	0.62286	0.08
51DAP/34DAP	0.89449	0.513
52DAP/51DAP	0.96075	1
53DAP/52DAP	1.04206	0.901
55DAP/53DAP	0.80396	0.094
57DAP/55DAP	1.09	0.881
62DAP/57DAP	2.19624
68DAP/62DAP	0.93567
68DAP/14DAP	0.90045	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	29.1179	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	6.72628	0.089
Mature Green Tomato/Ripe Tomato	4.21305	0.018
Immature Eggplant/Mature Eggplant	0.59353	0.062
Ripe Pepper/Ripe Tomato	0.03895	0.224
Mature Eggplant/Ripe Tomato	0.77116	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04652	0.742
1-1-2/M82	1.96778	1
12-2/M82	0.65701	0.639
12-4/M82	1.56878	1
1-3/M82	0.94769	1
2-1-1/M82	1.32658	0.422
2-1/M82	1.15206	1
2-6/M82	0.94006	1
3-2/M82	1.82755	0.84
4-1-1/M82	2.46197	0.977
4-1/M82	4.22048	0.512
4-3-2/M82	1.44508	0.253
4-3/M82	1.83534	0.268
5-3/M82	0.87705	1
6-2/M82	3.53447	0.253
6-3/M82	1.04564	1
7-1/M82	0.29539	0.44
7-2/M82	0.44666	0.434
9-3-2/M82	1.70468	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18575
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.8899	1
IL1-4/WTpooled	0.91782	0.699
WT/WTpooled	1.5962	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	0.8992	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12401	0.715
DC3000/delta hrp 6h	1.12422	1
DC3000/delta hrp 12h	1.05028	1
DC3000/delta hrp 24h	0.75417	0.042

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	1.1327	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06122	1
Exp 36h	1.0167	1
Exp 60h	1.12524	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00061	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.81848
Var 12h NI row2-row1	0.97185
Var 36h I row2-row1	0.91698	0.805
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	0.93337	0.643
Time course 12hI-12hNI	0.92028	0.144
Time course 36hI-36hNI	0.73759	0.023
Time course 60hI-60hNI	0.14136	0.005

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)	1.05036	0.748
transgenic ySAMdc/azygous control (breaker)	1.04954	1
transgenic ySAMdc/azygous control (red)	1.03399	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06572	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88464	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0974	0.307
Manapal/WT (break)	1.03438	1
Manapal/WT (red)	1.42047	0.413