Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98139	0.83
27DAP/17DAP	0.9726	0.982
39DAP/27DAP	1.25103	0.752
41DAP/39DAP	1.16374	0.334
42DAP/41DAP	1.01862	0.997
43DAP/42DAP	0.95244	0.741
47DAP/43DAP	0.98065	0.902
52DAP/47DAP	1.34891	0.535
57DAP/52DAP	0.97713	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97483	0.513
17DAP/reference	1.02606	0.193
27DAP/reference	1.00641	0.909
39DAP/reference	1.05062	0.377
41DAP/reference	1.00572	1
42DAP/reference	0.98559	0.348
43DAP/reference	1.00836	0.982
47DAP/reference	0.93542	0.174
52DAP/reference	0.98839	0.58
57DAP/reference	0.98107	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00685	0.975
27DAP/17DAP	0.99454	0.943
39DAP/27DAP	0.97826	0.821
41DAP/39DAP	1.09866	0.427
42DAP/41DAP	0.99654	0.894
43DAP/42DAP	1.0193	0.627
47DAP/43DAP	0.98457	0.923
52DAP/47DAP	1.01157	0.973
57DAP/52DAP	1.011	0.984
57DAP/7DAP	0.95108	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01263	1
17DAP/reference	1.08488	0.123
27DAP/reference	0.97603	0.303
39DAP/reference	1.16496	0.018
41DAP/reference	1.13935	0.126
42DAP/reference	1.16251	0.01
43DAP/reference	1.26832	0.009
47DAP/reference	1.05187	0.791
52DAP/reference	1.14201	0.021
57DAP/reference	1.11002	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96869	0.607
17DAP/reference	1.03312	0.508
27DAP/reference	0.93577	0.181
39DAP/reference	0.89629	0.017
41DAP/reference	0.97504	0.412
42DAP/reference	1.00499	1
43DAP/reference	0.98233	0.67
47DAP/reference	1.07298	0.112
52DAP/reference	0.98315	0.537
57DAP/reference	0.96167	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06646	0.493
17DAP/reference	1.02065	0.784
27DAP/reference	1.1181	0.062
39DAP/reference	0.99984	0.889
41DAP/reference	1.01717	0.939
42DAP/reference	1.01908	0.979
43DAP/reference	1.02697	0.779
47DAP/reference	0.97164	0.434
52DAP/reference	1.01866	0.965
57DAP/reference	0.96105	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96728	1
26DAP/20DAP	0.99753	1
34DAP/26DAP	0.99251	1
51DAP/34DAP	1.00878	0.962
52DAP/51DAP	0.97967	1
53DAP/52DAP	0.99863	1
55DAP/53DAP	0.97775	0.852
57DAP/55DAP	0.96336	0.863
62DAP/57DAP	0.98053	0.994
68DAP/62DAP	1.17637	0.166
68DAP/14DAP	1.05423	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98643	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.56447	0.417
Mature Green Tomato/Ripe Tomato	0.85938	0.182
Immature Eggplant/Mature Eggplant	1.65387	0.05
Ripe Pepper/Ripe Tomato	1.18555	1
Mature Eggplant/Ripe Tomato	2.21245	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95835	0.944
1-1-2/M82	0.96593	1
12-2/M82	1.00218	1
12-4/M82	0.99597	1
1-3/M82	0.94003	1
2-1-1/M82	0.97645	0.784
2-1/M82	1.16728	1
2-6/M82	0.96813	1
3-2/M82	1.06635	0.717
4-1-1/M82	0.97636	1
4-1/M82	0.85039	0.737
4-3-2/M82	0.97164	1
4-3/M82	0.98516	0.72
5-3/M82	1.0537	1
6-2/M82	1.08158	1
6-3/M82	1.04806	1
7-1/M82	1.01107	0.741
7-2/M82	0.91429	0.796
9-3-2/M82	0.91314	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90905	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02404	1
IL12-4/WTpooled	0.81994	0.581
IL1-4/WTpooled	0.95482
WT/WTpooled	1.01577	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	1.09963	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98002	1
DC3000/delta hrp 6h	1.11355	1
DC3000/delta hrp 12h	0.94289	1
DC3000/delta hrp 24h	0.99485	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97664	0.955
DC3000 delta B/DC3000 delta AB	1.04	0.565

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96185	1
Exp 36h	0.94537	1
Exp 60h	0.96203	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94626	1
Var 0h	1.09823	0.936
Var 12h I row2-row1	1.15571	0.263
Var 12h NI row2-row1	0.92147	0.82
Var 36h I row2-row1	0.95677	1
Var 36h NI row2-row1	0.884	0.61
Var 60h I row2-row1	1.2871	1
Var 60h NI row2-row1	0.99603	1
Time course 0hI-0hNI	1.01157	1
Time course 12hI-12hNI	1.02449	0.774
Time course 36hI-36hNI	0.94195	0.306
Time course 60hI-60hNI	0.96885	0.161

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)	0.83351	0.428
transgenic ySAMdc/azygous control (breaker)	1.39688	1
transgenic ySAMdc/azygous control (red)	1.3681	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98642	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09004	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27158	0.307
Manapal/WT (break)	1.07787	1
Manapal/WT (red)	1.27887	0.413