Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62551	0.029
27DAP/17DAP	0.65209	0.176
39DAP/27DAP	0.74663	0.507
41DAP/39DAP	1.17977	0.822
42DAP/41DAP	0.97098	1
43DAP/42DAP	1.07686	0.937
47DAP/43DAP	1.12769	0.904
52DAP/47DAP	0.78314	0.551
57DAP/52DAP	1.50424	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3097	0.013
17DAP/reference	1.04166	0.764
27DAP/reference	0.91455	0.223
39DAP/reference	1.08894	0.423
41DAP/reference	1.189	0.158
42DAP/reference	0.89361	0.02
43DAP/reference	0.94729	0.519
47DAP/reference	0.78908	0.001
52DAP/reference	0.71916	0.014
57DAP/reference	0.80915	0.029

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66407	0.05
27DAP/17DAP	1.48721	0.22
39DAP/27DAP	0.55896	0.037
41DAP/39DAP	0.96481	0.968
42DAP/41DAP	0.87639	0.276
43DAP/42DAP	0.81349	0.105
47DAP/43DAP	1.13825	0.822
52DAP/47DAP	1.02783	0.975
57DAP/52DAP	0.74207	0.324
57DAP/7DAP	2.47424

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.61601	0.069
17DAP/reference	1.49642	0.018
27DAP/reference	1.38375	0.023
39DAP/reference	1.12966	0.314
41DAP/reference	1.31267	0.03
42DAP/reference	1.16164	0.233
43DAP/reference	1.18638	0.06
47DAP/reference	1.19426	0.618
52DAP/reference	1.15394	0.183
57DAP/reference	1.1175	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29386	0.067
17DAP/reference	1.06956	0.426
27DAP/reference	0.99123	0.642
39DAP/reference	1.01067	1
41DAP/reference	1.24249	0.025
42DAP/reference	1.06013	0.476
43DAP/reference	0.8577	0.157
47DAP/reference	1.24972	0.039
52DAP/reference	1.29559	0.006
57DAP/reference	1.24387	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38844	0.244
17DAP/reference	1.22207	0.303
27DAP/reference	1.30752	0.198
39DAP/reference	1.39566	0.05
41DAP/reference	1.31142	0.074
42DAP/reference	1.1359	0.877
43DAP/reference	1.19909	0.291
47DAP/reference	0.53561	0.004
52DAP/reference	1.13951	0.779
57DAP/reference	0.64924	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97367	1
26DAP/20DAP	1.78749
34DAP/26DAP	1.28545	1
51DAP/34DAP	1.50266	0.064
52DAP/51DAP	1.27761	0.431
53DAP/52DAP	N/A	N/A
55DAP/53DAP	0.99546	0.886
57DAP/55DAP	1.13412	0.865
62DAP/57DAP	1.08174	0.723
68DAP/62DAP	0.7058	0.048
68DAP/14DAP	0.59577	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.50765	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.56506	0.058
Mature Green Tomato/Ripe Tomato	9.89156	0.016
Immature Eggplant/Mature Eggplant	1.24767	0.321
Ripe Pepper/Ripe Tomato	0.42862	0.224
Mature Eggplant/Ripe Tomato	25.4826	1

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	N/A	N/A
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	0.9355	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03644	1
IL12-4/WTpooled	1.07556	0.516
IL1-4/WTpooled	0.96487
WT/WTpooled	0.99542	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	0.62509	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07065	0.875
DC3000/delta hrp 6h	1.2043	1
DC3000/delta hrp 12h	1.18801	1
DC3000/delta hrp 24h	0.66874	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.74775	0.132
DC3000 delta B/DC3000 delta AB	1.01512	0.936

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96343	1
Exp 36h	1.17686	1
Exp 60h	0.71386	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9943	1
Var 0h	1.00818	1
Var 12h I row2-row1	0.89619	0.77
Var 12h NI row2-row1	1.13542	1
Var 36h I row2-row1	1.27251	0.908
Var 36h NI row2-row1	1.54977	0.276
Var 60h I row2-row1	1.43886
Var 60h NI row2-row1	1.16615	0.904
Time course 0hI-0hNI	0.82083	0.071
Time course 12hI-12hNI	0.91742	0.42
Time course 36hI-36hNI	0.78476	0.023
Time course 60hI-60hNI	0.19063	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)	1.0042	1
transgenic ySAMdc/azygous control (breaker)	0.73814	0.251
transgenic ySAMdc/azygous control (red)	1.24396	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9925	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00073	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29171	0.09
Manapal/WT (break)	0.70871	1
Manapal/WT (red)	N/A	N/A