Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93661	0.652
27DAP/17DAP	0.89442	0.746
39DAP/27DAP	2.01732	0.066
41DAP/39DAP	1.05468	0.962
42DAP/41DAP	1.12091	0.899
43DAP/42DAP	1.08547	1
47DAP/43DAP	1.00743	0.895
52DAP/47DAP	1.12705	0.869
57DAP/52DAP	1.07579	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98472	0.601
17DAP/reference	1.01648	0.606
27DAP/reference	0.99905	0.904
39DAP/reference	0.98405	0.691
41DAP/reference	1.02501	0.624
42DAP/reference	1.03906	0.609
43DAP/reference	0.99344	0.82
47DAP/reference	1.10302	0.002
52DAP/reference	1.04578	0.176
57DAP/reference	0.98957	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91162	0.336
27DAP/17DAP	1.00467	1
39DAP/27DAP	1.03097	0.799
41DAP/39DAP	1.05099	0.817
42DAP/41DAP	1.06262	0.872
43DAP/42DAP	1.10486	0.027
47DAP/43DAP	1.05855	0.765
52DAP/47DAP	1.00468	1
57DAP/52DAP	0.94513	0.507
57DAP/7DAP	0.80669	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07105	0.718
17DAP/reference	1.04211	1
27DAP/reference	0.9027	0.215
39DAP/reference	1.03058	0.909
41DAP/reference	1.0526	0.593
42DAP/reference	1.07329	0.308
43DAP/reference	1.08162	0.974
47DAP/reference	1.04111	0.745
52DAP/reference	1.15741	0.212
57DAP/reference	1.17271	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99976	0.951
17DAP/reference	1.05762	0.127
27DAP/reference	1.03446	0.781
39DAP/reference	1.04371	0.463
41DAP/reference	1.04446	0.814
42DAP/reference	1.02114	0.777
43DAP/reference	1.00332	0.801
47DAP/reference	1.02145	0.441
52DAP/reference	1.03796	0.156
57DAP/reference	0.98435	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98604	0.699
17DAP/reference	1.01683	0.932
27DAP/reference	1.11901	0.325
39DAP/reference	1.06702	0.836
41DAP/reference	1.14506	0.57
42DAP/reference	1.04768	0.658
43DAP/reference	1.39292	0.183
47DAP/reference	0.94577	0.103
52DAP/reference	1.23612	0.22
57DAP/reference	1.03579	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99692	1
26DAP/20DAP	0.89994	0.512
34DAP/26DAP	0.93902	0.795
51DAP/34DAP	1.12834	0.55
52DAP/51DAP	1.07602	0.565
53DAP/52DAP	1.01934	1
55DAP/53DAP	1.13485
57DAP/55DAP	1.10139	0.881
62DAP/57DAP	1.04712	0.868
68DAP/62DAP	0.99681	0.863
68DAP/14DAP	1.0848	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94871	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12522	0.176
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.13335	0.215
Ripe Pepper/Ripe Tomato	0.83835	1
Mature Eggplant/Ripe Tomato	1.31666	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07217	1
1-1-2/M82	1.13475	1
12-2/M82	1.14508	0.61
12-4/M82	0.98171	1
1-3/M82	0.90153	0.378
2-1-1/M82	1.03937	1
2-1/M82	1.14033
2-6/M82	1.06001	0.695
3-2/M82	1.05093	0.967
4-1-1/M82	0.9763	1
4-1/M82	1.12362
4-3-2/M82	1.04156
4-3/M82	1.0034	1
5-3/M82	1.04523	1
6-2/M82	0.9481	0.497
6-3/M82	1.011	1
7-1/M82	1.0443	0.925
7-2/M82	1.06452	1
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	0.89677	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03835	1
IL12-4/WTpooled	1.05611	0.839
IL1-4/WTpooled	1.1459	1
WT/WTpooled	0.95832	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	1.17383	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93647	0.839
DC3000/delta hrp 6h	0.85601	0.95
DC3000/delta hrp 12h	0.97411	1
DC3000/delta hrp 24h	1.01072	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1236	0.145
DC3000 delta B/DC3000 delta AB	0.97188	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10432	1
Exp 36h	1.04567	1
Exp 60h	1.23345	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02515	1
Var 0h	0.98076	1
Var 12h I row2-row1	0.89143	0.705
Var 12h NI row2-row1	0.88773	0.546
Var 36h I row2-row1	1.14201	0.908
Var 36h NI row2-row1	1.08132	1
Var 60h I row2-row1	1.02356	1
Var 60h NI row2-row1	1.13326	0.904
Time course 0hI-0hNI	1.10667	0.764
Time course 12hI-12hNI	0.99735	1
Time course 36hI-36hNI	1.09364	0.355
Time course 60hI-60hNI	1.3941	0.008

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)	1.10539	0.372
transgenic ySAMdc/azygous control (breaker)	1.02631	1
transgenic ySAMdc/azygous control (red)	0.93159	1

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	0.91035	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1909	1
Manapal/WT (break)	1.32189	0.183
Manapal/WT (red)	0.94045	0.607