Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94092	0.699
27DAP/17DAP	0.97842	0.994
39DAP/27DAP	0.78929	0.328
41DAP/39DAP	1.22729	0.367
42DAP/41DAP	0.93332	1
43DAP/42DAP	1.0115	0.934
47DAP/43DAP	0.93347	0.746
52DAP/47DAP	1.08493	0.847
57DAP/52DAP	0.94653	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04176	1
17DAP/reference	1.07186	0.384
27DAP/reference	1.07682	0.426
39DAP/reference	0.92421	0.412
41DAP/reference	1.20023	0.093
42DAP/reference	1.29982	0.025
43DAP/reference	1.23338	0.175
47DAP/reference	1.21362	0.014
52DAP/reference	1.28628	0.229
57DAP/reference	1.21607	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04362	0.5
27DAP/17DAP	0.92054	0.508
39DAP/27DAP	0.8869	0.231
41DAP/39DAP	1.12865	0.315
42DAP/41DAP	0.94399	0.478
43DAP/42DAP	0.90534	0.157
47DAP/43DAP	0.96449	0.774
52DAP/47DAP	0.91263	0.452
57DAP/52DAP	1.00017	0.913
57DAP/7DAP	0.87848	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9201	0.296
17DAP/reference	0.81868	0.049
27DAP/reference	0.89136	0.025
39DAP/reference	0.78085	0.013
41DAP/reference	0.83362	0.054
42DAP/reference	0.75389	0.012
43DAP/reference	0.77306	0.018
47DAP/reference	0.9866	0.671
52DAP/reference	0.78543	0.017
57DAP/reference	0.85428	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2033	0.304
17DAP/reference	1.5594	0.03
27DAP/reference	1.52947	0.239
39DAP/reference	0.87394	0.195
41DAP/reference	1.4402	0.006
42DAP/reference	1.27682	0.023
43DAP/reference	1.09643	0.817
47DAP/reference	1.12597	0.182
52DAP/reference	0.86643	0.171
57DAP/reference	1.08903	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82138	0.059
17DAP/reference	0.96888	0.624
27DAP/reference	0.74379	0.038
39DAP/reference	0.83491	0.069
41DAP/reference	0.84189	0.024
42DAP/reference	0.87566	0.172
43DAP/reference	1.07416	0.779
47DAP/reference	0.82374	0.063
52DAP/reference	0.83604	0.22
57DAP/reference	0.95934	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79045	0.915
26DAP/20DAP	0.90165	0.512
34DAP/26DAP	1.13477	0.819
51DAP/34DAP	0.93468	0.722
52DAP/51DAP	1.00712	0.939
53DAP/52DAP	0.92032	0.595
55DAP/53DAP	0.99178	0.894
57DAP/55DAP	1.25124	0.407
62DAP/57DAP	1.27378	0.767
68DAP/62DAP	0.78737	0.227
68DAP/14DAP	1.18904	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11708	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58697	0.178
Mature Green Tomato/Ripe Tomato	1.30657	0.07
Immature Eggplant/Mature Eggplant	0.82665	0.366
Ripe Pepper/Ripe Tomato	1.49504
Mature Eggplant/Ripe Tomato	1.45255

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.94571
12-2/M82	N/A	N/A
12-4/M82	0.55076
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.15146
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.82335
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.93658
7-2/M82	N/A	N/A
9-3-2/M82	0.8986	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96923	1
IL2-6/WTpooled	1.27526	0.415
IL7-5/WTpooled	1.48211	0.792
IL7-3/WTpooled	1.07206	1
IL12-4/WTpooled	1.07412	1
IL1-4/WTpooled	1.64115	1
WT/WTpooled	0.96298	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	1.04033	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.07124	1
DC3000/delta hrp 12h	1.30349	1
DC3000/delta hrp 24h	0.60975

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0137	1
DC3000 delta B/DC3000 delta AB	0.87159	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88078	1
Exp 36h	0.87363	0.749
Exp 60h	0.87489	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99022	1
Var 0h	0.90142	0.933
Var 12h I row2-row1	0.81419	0.363
Var 12h NI row2-row1	1.05684	1
Var 36h I row2-row1	1.16514	0.489
Var 36h NI row2-row1	1.45767	1
Var 60h I row2-row1	0.93415	0.832
Var 60h NI row2-row1	0.97191	1
Time course 0hI-0hNI	0.96052	0.771
Time course 12hI-12hNI	0.94621	0.556
Time course 36hI-36hNI	0.95267	0.136
Time course 60hI-60hNI	0.54221	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)	1.05778	0.431
transgenic ySAMdc/azygous control (breaker)	1.10198	1
transgenic ySAMdc/azygous control (red)	1.1196	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.78512	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80771	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.74023	0.09
Manapal/WT (break)	1.60773	0.14
Manapal/WT (red)	1.15587	0.413