Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11254	0.893
27DAP/17DAP	1.08964	0.871
39DAP/27DAP	1.33495	0.323
41DAP/39DAP	1.7301	0.478
42DAP/41DAP	1.13175	0.888
43DAP/42DAP	1.1706	0.873
47DAP/43DAP	0.98684	0.876
52DAP/47DAP	1.19986	0.667
57DAP/52DAP	0.94166	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90221	0.211
17DAP/reference	1.19199	0.1
27DAP/reference	1.00801	0.923
39DAP/reference	1.12456	0.581
41DAP/reference	1.36811	0.021
42DAP/reference	1.06039	0.68
43DAP/reference	1.05612	0.73
47DAP/reference	1.08294	0.463
52DAP/reference	1.03486	0.951
57DAP/reference	0.99743	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9705	0.663
27DAP/17DAP	0.99162	0.969
39DAP/27DAP	1.09531	0.422
41DAP/39DAP	0.92264	0.63
42DAP/41DAP	1.02261	0.999
43DAP/42DAP	1.12156	0.23
47DAP/43DAP	1.04079	0.857
52DAP/47DAP	1.00909	0.991
57DAP/52DAP	0.96506	0.591
57DAP/7DAP	1.30894	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.797	0.067
17DAP/reference	0.87243	0.012
27DAP/reference	0.86103	0.011
39DAP/reference	0.88176	0.025
41DAP/reference	0.74396	0.021
42DAP/reference	0.89394	0.026
43DAP/reference	0.8129	0.017
47DAP/reference	1.12794	0.571
52DAP/reference	0.89068	0.026
57DAP/reference	0.82329	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92198	0.487
17DAP/reference	1.17383	0.092
27DAP/reference	1.19239	0.068
39DAP/reference	0.85663	0.173
41DAP/reference	1.38134	0.07
42DAP/reference	1.25967	0.056
43DAP/reference	1.13872	0.479
47DAP/reference	1.07787	0.218
52DAP/reference	1.20601	0.393
57DAP/reference	1.1187	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90887	0.135
17DAP/reference	1.02696	0.865
27DAP/reference	0.84522	0.036
39DAP/reference	0.92178	0.271
41DAP/reference	0.96688	0.512
42DAP/reference	1.02358	1
43DAP/reference	1.15626	0.499
47DAP/reference	1.20452	0.171
52DAP/reference	1.09801	0.714
57DAP/reference	1.20881	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8905	1
26DAP/20DAP	1.29586	0.18
34DAP/26DAP	0.91791	0.584
51DAP/34DAP	1.2515	0.303
52DAP/51DAP	0.87974	1
53DAP/52DAP	1.20764	0.196
55DAP/53DAP	1.07331	0.494
57DAP/55DAP	1.25207	0.073
62DAP/57DAP	1.11825	0.868
68DAP/62DAP	1.2086	0.767
68DAP/14DAP	1.00213	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70555	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.80145	0.132
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	7.19932
Mature Eggplant/Ripe Tomato	1.09432

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.09891	1
12-2/M82	N/A	N/A
12-4/M82	1.05512	1
1-3/M82	N/A	N/A
2-1-1/M82	1.17019
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.06263	1
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.01353
4-3/M82	1.17665
5-3/M82	1.17357	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	1.25401
9-3-2/M82	0.86972	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.65293	0.243
IL2-6/WTpooled	1.23756	0.395
IL7-5/WTpooled	1.16675	0.792
IL7-3/WTpooled	0.70591	0.418
IL12-4/WTpooled	0.97034	1
IL1-4/WTpooled	0.94701	0.699
WT/WTpooled	0.95211	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	1.10694	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9769	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.28365	1
DC3000/delta hrp 24h	1.05339	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25153	0.081
DC3000 delta B/DC3000 delta AB	1.16972	0.261

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	1.00415	1
Var 0h	0.67208	1
Var 12h I row2-row1	1.103	0.406
Var 12h NI row2-row1	0.97985	0.906
Var 36h I row2-row1	1.04458	0.742
Var 36h NI row2-row1	1.31443	1
Var 60h I row2-row1	1.0515	1
Var 60h NI row2-row1	1.01147	1
Time course 0hI-0hNI	1.07369	0.574
Time course 12hI-12hNI	1.05646	0.493
Time course 36hI-36hNI	1.13323	0.513
Time course 60hI-60hNI	1.97273	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.55928	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12898	1
Manapal/WT (break)	1.05432	1
Manapal/WT (red)	1.72033	0.413