Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95889	0.743
27DAP/17DAP	1.28582	0.88
39DAP/27DAP	1.45114	0.184
41DAP/39DAP	1.192	0.504
42DAP/41DAP	1.68071	0.481
43DAP/42DAP	1.23732	0.655
47DAP/43DAP	0.91316	0.696
52DAP/47DAP	1.37573	0.646
57DAP/52DAP	1.03058	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94889	0.371
17DAP/reference	1.16962	0.045
27DAP/reference	1.04566	0.709
39DAP/reference	1.05363	0.497
41DAP/reference	1.17218	0.043
42DAP/reference	0.9568	0.268
43DAP/reference	1.02981	0.596
47DAP/reference	0.99305	0.568
52DAP/reference	0.77246	0.084
57DAP/reference	0.84047	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04538	1
27DAP/17DAP	0.85228	0.724
39DAP/27DAP	1.46817	0.171
41DAP/39DAP	1.98581	0.063
42DAP/41DAP	0.88751	0.384
43DAP/42DAP	1.22026	0.585
47DAP/43DAP	1.45785	0.276
52DAP/47DAP	0.95331	0.837
57DAP/52DAP	1.16615	0.703
57DAP/7DAP	1.40326	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2563	0.095
17DAP/reference	1.43773	0.025
27DAP/reference	1.16008	0.088
39DAP/reference	1.37543	0.013
41DAP/reference	1.33146	0.069
42DAP/reference	1.33878	0.021
43DAP/reference	1.63474	0.012
47DAP/reference	1.21682	0.632
52DAP/reference	1.45781	0.007
57DAP/reference	1.4762	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95381	0.503
17DAP/reference	0.96639	0.41
27DAP/reference	0.83742	0.093
39DAP/reference	0.83611	0.152
41DAP/reference	0.82168	0.096
42DAP/reference	0.84315	0.067
43DAP/reference	0.909	0.32
47DAP/reference	0.93283	0.133
52DAP/reference	0.93506	0.086
57DAP/reference	1.10882	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07585	0.505
17DAP/reference	1.17335	0.496
27DAP/reference	1.31366	0.035
39DAP/reference	1.30142	0.026
41DAP/reference	1.23318	0.257
42DAP/reference	1.1711	0.658
43DAP/reference	1.23482	0.688
47DAP/reference	0.95277	0.409
52DAP/reference	1.35415	0.128
57DAP/reference	0.60904	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99282	1
26DAP/20DAP	0.86273	0.244
34DAP/26DAP	1.26129	1
51DAP/34DAP	1.06028	0.949
52DAP/51DAP	1.25292	0.939
53DAP/52DAP	0.45013	0.094
55DAP/53DAP	1.12681	0.782
57DAP/55DAP	1.38416	0.114
62DAP/57DAP	1.51825	0.158
68DAP/62DAP	0.81911	0.144
68DAP/14DAP	0.87161	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0557	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.1972	0.068
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.46872
Ripe Pepper/Ripe Tomato	1.6345
Mature Eggplant/Ripe Tomato	0.21268	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.30977
12-2/M82	N/A	N/A
12-4/M82	0.96237	1
1-3/M82	1.88248
2-1-1/M82	1.66686
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	1.06154	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	2.63252
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	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	N/A	N/A

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	1.61127	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12722	0.692
DC3000/delta hrp 6h	1.08114	1
DC3000/delta hrp 12h	1.16297	1
DC3000/delta hrp 24h	1.21241	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	6.28898
DC3000 delta B/DC3000 delta AB	2.82641	0.096

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14985	1
Exp 36h	1.75269	0.326
Exp 60h	2.12988	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98743	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12077	0.736
Var 12h NI row2-row1	1.52051	0.649
Var 36h I row2-row1	1.04747	1
Var 36h NI row2-row1	1.18687	1
Var 60h I row2-row1	0.67645	0.292
Var 60h NI row2-row1	0.78294	0.69
Time course 0hI-0hNI	1.07068	0.852
Time course 12hI-12hNI	2.88904	0.005
Time course 36hI-36hNI	4.72339	0.008
Time course 60hI-60hNI	10.2787	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)	1.01018	0.931
transgenic ySAMdc/azygous control (breaker)	0.51171	0.139
transgenic ySAMdc/azygous control (red)	1.32834	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98603	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87322	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.40251	0.093
Manapal/WT (break)	0.89261	1
Manapal/WT (red)	1.05823	1