Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.15.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12102	0.67
27DAP/17DAP	1.10364	0.868
39DAP/27DAP	0.92132	0.641
41DAP/39DAP	1.13888	0.549
42DAP/41DAP	0.96844	1
43DAP/42DAP	0.91201	0.833
47DAP/43DAP	1.36449	0.444
52DAP/47DAP	0.91228	0.685
57DAP/52DAP	1.08585	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93758	0.188
17DAP/reference	0.9456	0.169
27DAP/reference	0.98315	0.668
39DAP/reference	0.95823	0.446
41DAP/reference	0.93076	0.267
42DAP/reference	0.99453	0.531
43DAP/reference	0.98564	0.763
47DAP/reference	0.96826	0.322
52DAP/reference	0.91316	0.223
57DAP/reference	1.10315	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00898	0.99
27DAP/17DAP	0.97731	0.748
39DAP/27DAP	0.96003	0.4
41DAP/39DAP	1.01275	0.909
42DAP/41DAP	1.008	1
43DAP/42DAP	1.02861	0.554
47DAP/43DAP	0.99748	0.997
52DAP/47DAP	0.98485	0.93
57DAP/52DAP	1.02667	0.818
57DAP/7DAP	0.95006	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72278	0.066
17DAP/reference	0.7313	0.025
27DAP/reference	1.13962	0.453
39DAP/reference	0.89938	0.126
41DAP/reference	0.67188	0.024
42DAP/reference	0.88995	0.034
43DAP/reference	0.65524	0.013
47DAP/reference	0.8257	0.101
52DAP/reference	0.64296	0.014
57DAP/reference	0.63723	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87489	0.129
17DAP/reference	0.95997	0.297
27DAP/reference	0.89285	0.064
39DAP/reference	0.88879	0.117
41DAP/reference	0.90926	0.199
42DAP/reference	0.96004	0.433
43DAP/reference	0.97319	0.561
47DAP/reference	1.07056	0.301
52DAP/reference	0.91118	0.043
57DAP/reference	0.93146	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72385	0.047
17DAP/reference	0.84741	0.3
27DAP/reference	0.66455	0.04
39DAP/reference	0.73815	0.046
41DAP/reference	0.71031	0.019
42DAP/reference	1.2805	0.171
43DAP/reference	1.23306	0.202
47DAP/reference	0.99523	0.667
52DAP/reference	1.10783	0.289
57DAP/reference	1.01804	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07478	0.817
26DAP/20DAP	1.03969	0.839
34DAP/26DAP	1.00245	1
51DAP/34DAP	0.96157	0.611
52DAP/51DAP	0.98137	1
53DAP/52DAP	1.05118	0.712
55DAP/53DAP	1.0293	0.981
57DAP/55DAP	1.06868	0.927
62DAP/57DAP	1.36683	0.393
68DAP/62DAP	1.12073	0.549
68DAP/14DAP	1.21882	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01077	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.16797	0.666
Mature Green Tomato/Ripe Tomato	0.91314	0.446
Immature Eggplant/Mature Eggplant	1.11576	0.417
Ripe Pepper/Ripe Tomato	0.93679	1
Mature Eggplant/Ripe Tomato	0.96471	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01917	1
1-1-2/M82	0.87729	1
12-2/M82	1.1945
12-4/M82	1.05849	1
1-3/M82	1.00327	1
2-1-1/M82	1.0665	0.689
2-1/M82	N/A	N/A
2-6/M82	0.97424	1
3-2/M82	N/A	N/A
4-1-1/M82	0.93627	1
4-1/M82	0.94838
4-3-2/M82	0.82214	0.698
4-3/M82	0.97981	1
5-3/M82	1.05329	1
6-2/M82	0.9536	0.497
6-3/M82	0.94044	0.982
7-1/M82	0.92991
7-2/M82	1.02166	1
9-3-2/M82	0.71634	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01476	1
IL2-6/WTpooled	0.91479	1
IL7-5/WTpooled	0.84521	1
IL7-3/WTpooled	0.84183	0.31
IL12-4/WTpooled	1.30729	0.624
IL1-4/WTpooled	1.25145	0.417
WT/WTpooled	1.12754	0.957

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	1.18618	0.167

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00969	1
DC3000/delta hrp 6h	1.34515	1
DC3000/delta hrp 12h	1.0088	1
DC3000/delta hrp 24h	0.97168	0.851

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30744	0.042
DC3000 delta B/DC3000 delta AB	1.12495	0.345

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	1.06543	1
Var 0h	1.12973	0.98
Var 12h I row2-row1	1.29558	0.196
Var 12h NI row2-row1	1.09723	1
Var 36h I row2-row1	1.09046	1
Var 36h NI row2-row1	0.89392	0.584
Var 60h I row2-row1	1.18721	0.562
Var 60h NI row2-row1	1.05687	1
Time course 0hI-0hNI	1.09188	0.867
Time course 12hI-12hNI	1.08425	0.603
Time course 36hI-36hNI	1.12208	0.08
Time course 60hI-60hNI	1.90812	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)	0.87941	0.454
transgenic ySAMdc/azygous control (breaker)	1.17805	1
transgenic ySAMdc/azygous control (red)	1.14795	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99481	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99476	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97631	1
Manapal/WT (break)	0.70876	0.333
Manapal/WT (red)	0.72534	0.183