Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.9.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86797	0.389
27DAP/17DAP	0.89693	0.751
39DAP/27DAP	1.31426	0.325
41DAP/39DAP	1.18137	0.416
42DAP/41DAP	1.06145	0.999
43DAP/42DAP	0.85722	0.583
47DAP/43DAP	1.01444	0.98
52DAP/47DAP	1.46408	0.388
57DAP/52DAP	0.92839	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08921	0.278
17DAP/reference	0.98742	0.819
27DAP/reference	0.79778	0.02
39DAP/reference	0.96187	0.554
41DAP/reference	0.90505	0.434
42DAP/reference	1.02544	0.565
43DAP/reference	0.97572	0.708
47DAP/reference	0.89848	0.006
52DAP/reference	0.88611	0.195
57DAP/reference	0.95369	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11586	0.305
27DAP/17DAP	1.09544	0.771
39DAP/27DAP	0.98332	0.859
41DAP/39DAP	1.01405	1
42DAP/41DAP	1.026	0.976
43DAP/42DAP	1.03875	0.351
47DAP/43DAP	1.01132	0.951
52DAP/47DAP	0.90306	0.66
57DAP/52DAP	0.89495	0.145
57DAP/7DAP	0.8755	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15753	0.163
17DAP/reference	0.87713	0.072
27DAP/reference	0.78422	0.033
39DAP/reference	0.63048	0.011
41DAP/reference	0.61645	0.018
42DAP/reference	0.43704	0.01
43DAP/reference	0.55536	0.01
47DAP/reference	0.80894	0.293
52DAP/reference	0.56447	0.015
57DAP/reference	0.54962	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04805	0.704
17DAP/reference	1.24471	0.025
27DAP/reference	1.13616	0.143
39DAP/reference	0.96619	0.37
41DAP/reference	0.98387	0.505
42DAP/reference	1.01551	1
43DAP/reference	0.78732	0.144
47DAP/reference	0.99784	0.749
52DAP/reference	0.83477	0.016
57DAP/reference	0.87163	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.53087	0.02
17DAP/reference	1.4465	0.111
27DAP/reference	1.20408	0.04
39DAP/reference	1.01485	0.858
41DAP/reference	0.79774	0.107
42DAP/reference	0.77581	0.087
43DAP/reference	0.78745	0.071
47DAP/reference	0.824	0.004
52DAP/reference	1.07492	0.99
57DAP/reference	0.93455	0.225

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88762	0.807
26DAP/20DAP	1.20601	0.288
34DAP/26DAP	0.94977	0.548
51DAP/34DAP	0.84532	0.092
52DAP/51DAP	1.10191	0.606
53DAP/52DAP	1.14997	0.284
55DAP/53DAP	1.11354	0.722
57DAP/55DAP	1.0329	0.793
62DAP/57DAP	1.09249	0.622
68DAP/62DAP	1.05901	0.7
68DAP/14DAP	1.01321	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1579	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.11482	0.068
Mature Green Tomato/Ripe Tomato	1.17977	0.363
Immature Eggplant/Mature Eggplant	1.03621	0.528
Ripe Pepper/Ripe Tomato	1.06976	1
Mature Eggplant/Ripe Tomato	1.16483	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95427	0.934
1-1-2/M82	1.05311	1
12-2/M82	1.00477	1
12-4/M82	0.95292	1
1-3/M82	1.05969	1
2-1-1/M82	0.97848
2-1/M82	0.68521	0.519
2-6/M82	0.99479	1
3-2/M82	0.97882	1
4-1-1/M82	1.05876	1
4-1/M82	1.06119	0.853
4-3-2/M82	1.21547	1
4-3/M82	1.12553	1
5-3/M82	1.12254	1
6-2/M82	0.9748	1
6-3/M82	0.97966	1
7-1/M82	0.89064
7-2/M82	1.02834	1
9-3-2/M82	1.03806	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	3.39605
IL2-6/WTpooled	1.10065	0.659
IL7-5/WTpooled	1.51465
IL7-3/WTpooled	1.00584	1
IL12-4/WTpooled	0.9246	1
IL1-4/WTpooled	2.2783	1
WT/WTpooled	0.98857	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	1.08179	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03578	0.921
DC3000/delta hrp 6h	1.14389	1
DC3000/delta hrp 12h	0.91877	1
DC3000/delta hrp 24h	1.09455	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26831	0.145
DC3000 delta B/DC3000 delta AB	1.0529	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00202	1
Exp 36h	0.94562	0.879
Exp 60h	0.82417	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99457	1
Var 0h	0.97539	1
Var 12h I row2-row1	1.00715	1
Var 12h NI row2-row1	1.10005	0.649
Var 36h I row2-row1	1.13575	0.601
Var 36h NI row2-row1	0.91325	0.645
Var 60h I row2-row1	0.97682	1
Var 60h NI row2-row1	0.8944	0.483
Time course 0hI-0hNI	0.91767	0.294
Time course 12hI-12hNI	1.04311	0.467
Time course 36hI-36hNI	1.16591	0.128
Time course 60hI-60hNI	1.29165	0.019

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)	1.00999	0.863
transgenic ySAMdc/azygous control (breaker)	1.67035	0.178
transgenic ySAMdc/azygous control (red)	1.28879	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03327	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98104	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29883	0.14
Manapal/WT (break)	1.15654	0.183
Manapal/WT (red)	1.97146	0.134