Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.16.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85454	0.211
27DAP/17DAP	1.09297	0.866
39DAP/27DAP	1.14735	0.845
41DAP/39DAP	1.12727	0.833
42DAP/41DAP	0.85485	1
43DAP/42DAP	0.99198	0.931
47DAP/43DAP	0.99892	0.76
52DAP/47DAP	1.15964	0.989
57DAP/52DAP	0.7852	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82847	0.092
17DAP/reference	0.958	0.503
27DAP/reference	0.9917	0.763
39DAP/reference	1.04673	0.603
41DAP/reference	0.90708	0.114
42DAP/reference	0.87365	0.072
43DAP/reference	0.97671	0.653
47DAP/reference	0.90831	0.09
52DAP/reference	0.98355	0.515
57DAP/reference	1.10557	0.136

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08346	0.871
27DAP/17DAP	1.16611	0.775
39DAP/27DAP	1.03712	1
41DAP/39DAP	1.09898	0.861
42DAP/41DAP	0.70789	0.029
43DAP/42DAP	0.976	0.684
47DAP/43DAP	1.04907	1
52DAP/47DAP	1.20266	0.907
57DAP/52DAP	1.34168	0.611
57DAP/7DAP	0.96372	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15261	0.231
17DAP/reference	0.95692	0.389
27DAP/reference	1.04792	0.664
39DAP/reference	1.03783	0.538
41DAP/reference	1.05017	0.791
42DAP/reference	1.10386	0.686
43DAP/reference	0.96046	0.403
47DAP/reference	1.17471	0.136
52DAP/reference	1.16624	0.197
57DAP/reference	0.98478	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00481	0.907
17DAP/reference	0.79852	0.026
27DAP/reference	0.8818	0.15
39DAP/reference	0.90731	0.227
41DAP/reference	0.87463	0.199
42DAP/reference	0.92677	0.189
43DAP/reference	0.99334	0.646
47DAP/reference	1.13211	0.467
52DAP/reference	0.92245	0.171
57DAP/reference	1.09461	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97617	0.455
17DAP/reference	0.81887	0.217
27DAP/reference	0.91828	0.184
39DAP/reference	1.06115	0.227
41DAP/reference	0.92637	0.185
42DAP/reference	0.97819	0.671
43DAP/reference	0.93248	0.319
47DAP/reference	1.01916	1
52DAP/reference	0.91861	0.415
57DAP/reference	1.13568	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.47107	0.966
26DAP/20DAP	0.79221	0.512
34DAP/26DAP	0.76454
51DAP/34DAP	1.13771
52DAP/51DAP	1.61887	0.202
53DAP/52DAP	1.13208	0.712
55DAP/53DAP	1.17392	0.79
57DAP/55DAP	1.48249	0.474
62DAP/57DAP	1.15266	1
68DAP/62DAP	1.27671	0.689
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.53016	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.9302
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.00539
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.77826
IL12-4/WTpooled	0.89267	1
IL1-4/WTpooled	1.10008	1
WT/WTpooled	1.17958	0.794

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	1.06575	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02045	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.02256	1
DC3000/delta hrp 24h	0.94847	0.831

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.06036	1

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	1.03795	1
Var 0h	0.93659	1
Var 12h I row2-row1	0.69149	0.363
Var 12h NI row2-row1	1.38193	0.649
Var 36h I row2-row1	0.7879	1
Var 36h NI row2-row1	0.67379	0.478
Var 60h I row2-row1	0.74588	0.582
Var 60h NI row2-row1	0.75427	0.408
Time course 0hI-0hNI	1.07047	0.574
Time course 12hI-12hNI	0.88643	0.268
Time course 36hI-36hNI	1.33102	0.089
Time course 60hI-60hNI	2.55739	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)	0.87107	0.289
transgenic ySAMdc/azygous control (breaker)	1.5668	0.248
transgenic ySAMdc/azygous control (red)	1.08728	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0128	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8232	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05467	0.307
Manapal/WT (break)	1.25178	0.13
Manapal/WT (red)	1.17828	0.142