Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12885	0.863
27DAP/17DAP	0.74023	0.307
39DAP/27DAP	1.13634	0.85
41DAP/39DAP	0.8128	0.482
42DAP/41DAP	0.70292	0.262
43DAP/42DAP	1.18794	1
47DAP/43DAP	1.01051	0.943
52DAP/47DAP	1.68493	0.667
57DAP/52DAP	1.06992	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83782	0.058
17DAP/reference	0.88502	0.069
27DAP/reference	0.87276	0.039
39DAP/reference	0.87194	0.068
41DAP/reference	0.89641	0.049
42DAP/reference	0.85598	0.015
43DAP/reference	0.92766	0.394
47DAP/reference	0.83229	0.003
52DAP/reference	0.80427	0.029
57DAP/reference	0.81352	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22287	0.208
27DAP/17DAP	0.93433	0.748
39DAP/27DAP	0.9297	0.488
41DAP/39DAP	1.17527	0.827
42DAP/41DAP	1.02487	0.907
43DAP/42DAP	1.02725	0.83
47DAP/43DAP	1.01511	0.969
52DAP/47DAP	0.97299	0.9
57DAP/52DAP	0.88742	0.39
57DAP/7DAP	0.82582	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9282	0.203
17DAP/reference	0.99439	0.599
27DAP/reference	1.07913	0.371
39DAP/reference	1.14087	0.029
41DAP/reference	0.95991	0.412
42DAP/reference	1.02626	0.828
43DAP/reference	1.02136	0.727
47DAP/reference	0.82747	0.222
52DAP/reference	0.83474	0.061
57DAP/reference	0.93304	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97198	0.688
17DAP/reference	0.87844	0.208
27DAP/reference	0.93904	0.407
39DAP/reference	0.85384	0.014
41DAP/reference	0.96736	0.422
42DAP/reference	0.69381	0.016
43DAP/reference	0.99964	0.706
47DAP/reference	0.76096	0.013
52DAP/reference	0.7396	0.187
57DAP/reference	1.05807	0.423

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12448	0.103
17DAP/reference	1.15231	0.217
27DAP/reference	1.08711	0.373
39DAP/reference	1.10727	0.496
41DAP/reference	1.05075	0.939
42DAP/reference	0.96434	0.671
43DAP/reference	1.05624	0.894
47DAP/reference	0.77912	0.011
52DAP/reference	0.85235	0.16
57DAP/reference	0.77388	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10633	0.966
26DAP/20DAP	0.71851	0.512
34DAP/26DAP	1.17612	0.819
51DAP/34DAP	1.11168	0.613
52DAP/51DAP	1.04829	0.542
53DAP/52DAP	0.87078	0.131
55DAP/53DAP	1.11342	0.755
57DAP/55DAP	0.91602	0.623
62DAP/57DAP	2.01345	0.767
68DAP/62DAP	0.97064	0.863
68DAP/14DAP	0.75287	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.79904	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.55128	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.41179	0.064
Ripe Pepper/Ripe Tomato	0.79988
Mature Eggplant/Ripe Tomato	2.72917

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0457	1
1-1-2/M82	0.92109	1
12-2/M82	1.36331
12-4/M82	1.13552	1
1-3/M82	0.6495	0.378
2-1-1/M82	1.37425	1
2-1/M82	N/A	N/A
2-6/M82	1.01984	1
3-2/M82	0.83099
4-1-1/M82	0.83901	1
4-1/M82	1.5893
4-3-2/M82	1.13289
4-3/M82	N/A	N/A
5-3/M82	0.86755	1
6-2/M82	0.78396	0.497
6-3/M82	0.8614
7-1/M82	0.94693	1
7-2/M82	0.73345
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31504	0.277
IL2-6/WTpooled	1.77536	0.427
IL7-5/WTpooled	1.12604	1
IL7-3/WTpooled	1.60254	1
IL12-4/WTpooled	1.29472	0.516
IL1-4/WTpooled	0.98889	1
WT/WTpooled	1.09502	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	0.73235	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04194	0.914
DC3000/delta hrp 6h	1.02651	1
DC3000/delta hrp 12h	0.71767	1
DC3000/delta hrp 24h	0.75563	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61931	0.036
DC3000 delta B/DC3000 delta AB	0.4816	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15963	1
Exp 36h	0.79996	0.699
Exp 60h	0.81696	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99214	1
Var 0h	1.09764	0.98
Var 12h I row2-row1	0.72927	0.39
Var 12h NI row2-row1	1.01316	1
Var 36h I row2-row1	1.00059	1
Var 36h NI row2-row1	1.52859	0.482
Var 60h I row2-row1	1.21995	0.376
Var 60h NI row2-row1	1.02972	1
Time course 0hI-0hNI	0.95714	0.763
Time course 12hI-12hNI	0.91817	0.312
Time course 36hI-36hNI	0.8085	0.044
Time course 60hI-60hNI	0.07732	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)	1.03343	1
transgenic ySAMdc/azygous control (breaker)	1.16216	0.248
transgenic ySAMdc/azygous control (red)	1.08686	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83627	0.101

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.57369	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	15.3829	0.083
Manapal/WT (break)	2.37592	0.14
Manapal/WT (red)	1.23121	0.413