Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10898	0.904
27DAP/17DAP	1.038	0.978
39DAP/27DAP	0.80915	0.449
41DAP/39DAP	1.16373	0.921
42DAP/41DAP	0.90264	1
43DAP/42DAP	1.28834	0.867
47DAP/43DAP	1.05992	1
52DAP/47DAP	0.95461	0.8
57DAP/52DAP	1.07608	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84291	0.063
17DAP/reference	0.86481	0.079
27DAP/reference	0.95264	0.538
39DAP/reference	0.82309	0.038
41DAP/reference	0.80373	0.01
42DAP/reference	0.70087	0.081
43DAP/reference	0.96918	0.691
47DAP/reference	1.14536	0.223
52DAP/reference	0.98446	0.564
57DAP/reference	1.16806	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15023	0.172
27DAP/17DAP	1.268	0.2
39DAP/27DAP	0.97064	0.833
41DAP/39DAP	1.12476	0.849
42DAP/41DAP	1.1626	0.084
43DAP/42DAP	1.03086	1
47DAP/43DAP	1.06927	0.817
52DAP/47DAP	1.10314	0.696
57DAP/52DAP	0.93767	0.608
57DAP/7DAP	0.93661	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90405	0.224
17DAP/reference	0.93109	0.295
27DAP/reference	0.83884	0.035
39DAP/reference	0.96373	0.354
41DAP/reference	0.9029	0.062
42DAP/reference	0.92348	0.262
43DAP/reference	0.87041	0.159
47DAP/reference	0.91696	0.293
52DAP/reference	0.87701	0.115
57DAP/reference	0.92503	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94675	0.623
17DAP/reference	0.76498	0.046
27DAP/reference	0.81111	0.048
39DAP/reference	0.79573	0.105
41DAP/reference	0.96131	0.242
42DAP/reference	0.82831	0.028
43DAP/reference	0.79758	0.114
47DAP/reference	0.80821	0.017
52DAP/reference	0.98784	0.619
57DAP/reference	0.84289	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86052	0.169
17DAP/reference	0.97033	0.624
27DAP/reference	0.86453	0.062
39DAP/reference	0.91335	0.092
41DAP/reference	0.84782	0.077
42DAP/reference	0.93352	0.445
43DAP/reference	0.93162	0.081
47DAP/reference	0.93356	0.325
52DAP/reference	0.70501	0.204
57DAP/reference	1.09604	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8809	0.981
26DAP/20DAP	1.22426	0.223
34DAP/26DAP	1.01766	1
51DAP/34DAP	1.00463	0.927
52DAP/51DAP	0.84564	1
53DAP/52DAP	1.05365	0.998
55DAP/53DAP	0.83424	0.313
57DAP/55DAP	1.05638	0.986
62DAP/57DAP	1.25614	0.445
68DAP/62DAP	1.36623	0.017
68DAP/14DAP	1.26644	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17487	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.62042	0.086
Immature Eggplant/Mature Eggplant	2.35278	0.267
Ripe Pepper/Ripe Tomato	1.70241
Mature Eggplant/Ripe Tomato	2.31434	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
5-3/M82	0.83137
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.83454	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90493	1
IL12-4/WTpooled	0.95826	1
IL1-4/WTpooled	0.67374
WT/WTpooled	1.03959	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	0.97841	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9529	1
DC3000/delta hrp 6h	1.06023	0.95
DC3000/delta hrp 12h	0.86445	1
DC3000/delta hrp 24h	0.59177	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97606	0.92
DC3000 delta B/DC3000 delta AB	0.74586	0.043

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.76956	1
Exp 36h	0.97976	0.943
Exp 60h	0.68702	0.754

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	0.93705	0.933
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)	1.0583	0.541
transgenic ySAMdc/azygous control (breaker)	0.86989	0.173
transgenic ySAMdc/azygous control (red)	1.09005	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02663	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2084	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.03329	0.105
Manapal/WT (break)	1.94466	0.13
Manapal/WT (red)	1.9461	0.142