Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26902	0.63
27DAP/17DAP	0.92649	0.819
39DAP/27DAP	1.60683	0.077
41DAP/39DAP	0.70445	0.097
42DAP/41DAP	1.18741	1
43DAP/42DAP	1.45598	0.968
47DAP/43DAP	0.568	0.057
52DAP/47DAP	0.82813	0.551
57DAP/52DAP	0.89196	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3805	0.105
17DAP/reference	1.20394	0.442
27DAP/reference	0.84205	0.092
39DAP/reference	1.21923	0.393
41DAP/reference	1.22227	0.287
42DAP/reference	1.65781	0.001
43DAP/reference	1.12851	0.425
47DAP/reference	0.99356	0.535
52DAP/reference	0.43857	0.013
57DAP/reference	0.62307	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21809	0.055
27DAP/17DAP	0.82147	0.164
39DAP/27DAP	0.84788	0.058
41DAP/39DAP	1.488	0.531
42DAP/41DAP	0.9775	0.764
43DAP/42DAP	1.02772	0.627
47DAP/43DAP	0.95393	0.764
52DAP/47DAP	0.86317	0.156
57DAP/52DAP	0.96013	0.732
57DAP/7DAP	0.65223	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.37899	0.024
17DAP/reference	1.70565	0.006
27DAP/reference	1.64284	0.008
39DAP/reference	1.98856	0.005
41DAP/reference	1.92175	0.008
42DAP/reference	1.9761	0.006
43DAP/reference	1.95138	0.006
47DAP/reference	2.36459	0.014
52DAP/reference	1.91084	0.007
57DAP/reference	1.43574	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08796	0.65
17DAP/reference	1.73422	0.007
27DAP/reference	1.59847	0.013
39DAP/reference	1.51839	0.011
41DAP/reference	1.51336	0.005
42DAP/reference	1.40875	0.009
43DAP/reference	1.25258	0.617
47DAP/reference	1.87876	0.008
52DAP/reference	1.00716	0.713
57DAP/reference	0.95153	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.5769	0.017
17DAP/reference	1.37972	0.191
27DAP/reference	1.14545	0.156
39DAP/reference	1.41837	0.008
41DAP/reference	1.36175	0.009
42DAP/reference	1.6073	0.007
43DAP/reference	1.49896	0.019
47DAP/reference	0.92732	0.315
52DAP/reference	0.92123	0.464
57DAP/reference	0.73273	0.065

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99904	1
26DAP/20DAP	0.98224	1
34DAP/26DAP	2.08934	0.19
51DAP/34DAP	1.02363	1
52DAP/51DAP	0.92109	1
53DAP/52DAP	0.59929	0.049
55DAP/53DAP	0.65223	0.024
57DAP/55DAP	1.71969	0.448
62DAP/57DAP	0.81543	0.28
68DAP/62DAP	0.66635	0.068
68DAP/14DAP	0.65964	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.52943	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92968	0.551
Mature Green Tomato/Ripe Tomato	2.15119	0.017
Immature Eggplant/Mature Eggplant	2.20012	0.05
Ripe Pepper/Ripe Tomato	1.09203	1
Mature Eggplant/Ripe Tomato	0.70205	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88106	0.944
1-1-2/M82	1.12344	1
12-2/M82	0.78699	0.692
12-4/M82	1.29085	1
1-3/M82	1.69741	0.26
2-1-1/M82	1.14034	1
2-1/M82	0.93483	1
2-6/M82	1.18446	0.452
3-2/M82	1.14356	0.717
4-1-1/M82	1.13799	1
4-1/M82	1.47202	1
4-3-2/M82	1.85057	0.241
4-3/M82	0.99771	1
5-3/M82	1.18099	1
6-2/M82	2.27015
6-3/M82	1.11329	1
7-1/M82	0.96977	0.443
7-2/M82	1.44487	0.324
9-3-2/M82	1.49147	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8997	1
IL2-6/WTpooled	0.90906	0.473
IL7-5/WTpooled	0.88479	1
IL7-3/WTpooled	0.91508	1
IL12-4/WTpooled	0.5939	0.497
IL1-4/WTpooled	0.83685	0.699
WT/WTpooled	1.04022	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	0.96321	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06909	0.921
DC3000/delta hrp 6h	0.94912	0.95
DC3000/delta hrp 12h	1.16234	1
DC3000/delta hrp 24h	1.10804	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.88222	0.081
DC3000 delta B/DC3000 delta AB	0.93137	0.369

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14364	1
Exp 36h	1.13292	0.879
Exp 60h	0.9016	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98568	1
Var 0h	0.75733	0.933
Var 12h I row2-row1	0.94009	0.627
Var 12h NI row2-row1	1.06746	1
Var 36h I row2-row1	0.9562	1
Var 36h NI row2-row1	1.04436	1
Var 60h I row2-row1	0.8842	0.832
Var 60h NI row2-row1	0.92062	0.69
Time course 0hI-0hNI	1.06982	0.537
Time course 12hI-12hNI	0.98684	0.924
Time course 36hI-36hNI	0.98551	0.621
Time course 60hI-60hNI	0.86	0.026

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)	0.93722	0.409
transgenic ySAMdc/azygous control (breaker)	0.80935	0.251
transgenic ySAMdc/azygous control (red)	1.11314	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03264	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76528	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86959	1
Manapal/WT (break)	0.68452	0.333
Manapal/WT (red)	0.74798	0.274