Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12039	0.646
27DAP/17DAP	1.41937	0.699
39DAP/27DAP	1.36184	0.416
41DAP/39DAP	1.04552	0.844
42DAP/41DAP	1.14804	0.792
43DAP/42DAP	1.11629	0.94
47DAP/43DAP	0.79767	0.382
52DAP/47DAP	1.09417	0.902
57DAP/52DAP	0.94302	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93502	0.136
17DAP/reference	1.03362	0.161
27DAP/reference	1.04802	0.58
39DAP/reference	1.06648	0.403
41DAP/reference	0.98516	0.814
42DAP/reference	1.29611	0.001
43DAP/reference	1.10918	0.306
47DAP/reference	1.21765	0.001
52DAP/reference	1.03304	0.84
57DAP/reference	0.95188	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20268	0.083
27DAP/17DAP	0.99191	0.943
39DAP/27DAP	1.31692	0.127
41DAP/39DAP	1.00595	1
42DAP/41DAP	1.09265	0.46
43DAP/42DAP	1.2528	0.018
47DAP/43DAP	0.96634	0.796
52DAP/47DAP	0.94861	0.778
57DAP/52DAP	1.09449	0.448
57DAP/7DAP	1.30105	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85861	0.066
17DAP/reference	0.94635	0.021
27DAP/reference	0.96098	0.094
39DAP/reference	1.05884	0.066
41DAP/reference	1.01384	0.891
42DAP/reference	1.13444	0.024
43DAP/reference	1.19257	0.012
47DAP/reference	1.81201	0.014
52DAP/reference	0.98609	0.523
57DAP/reference	0.99525	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93871	0.145
17DAP/reference	1.08316	0.12
27DAP/reference	1.0656	0.543
39DAP/reference	1.03318	0.783
41DAP/reference	1.07046	0.893
42DAP/reference	1.01773	0.987
43DAP/reference	1.20317	0.268
47DAP/reference	1.06494	0.377
52DAP/reference	0.98902	0.5
57DAP/reference	1.10809	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89475	0.092
17DAP/reference	0.93138	0.198
27DAP/reference	0.88848	0.065
39DAP/reference	0.95962	0.199
41DAP/reference	0.95099	0.043
42DAP/reference	1.05432	0.408
43DAP/reference	1.15804	0.066
47DAP/reference	1.32208	0.035
52DAP/reference	1.37797	0.11
57DAP/reference	1.05145	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00795	1
26DAP/20DAP	1.00885	1
34DAP/26DAP	0.96795	0.857
51DAP/34DAP	0.9191	0.571
52DAP/51DAP	0.99492	1
53DAP/52DAP	1.00872	0.944
55DAP/53DAP	1.12235	0.429
57DAP/55DAP	0.9123	0.694
62DAP/57DAP	1.0439	0.8
68DAP/62DAP	0.7605	0.082
68DAP/14DAP	0.85671	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.85024	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0377	0.417
Mature Green Tomato/Ripe Tomato	0.64132	0.256
Immature Eggplant/Mature Eggplant	0.67362	0.063
Ripe Pepper/Ripe Tomato	0.27935	0.224
Mature Eggplant/Ripe Tomato	0.43289	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1588	0.574
1-1-2/M82	1.20304	1
12-2/M82	0.99061	1
12-4/M82	1.09378	1
1-3/M82	1.32091	0.26
2-1-1/M82	0.95072	0.784
2-1/M82	0.73921	0.519
2-6/M82	0.93509	1
3-2/M82	0.90324	0.455
4-1-1/M82	1.08855	1
4-1/M82	1.30941	1
4-3-2/M82	1.31742	0.508
4-3/M82	0.9998	1
5-3/M82	1.04091	0.496
6-2/M82	0.98059	1
6-3/M82	0.99814	1
7-1/M82	0.92023	0.803
7-2/M82	1.22434	1
9-3-2/M82	1.22711	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70818	0.243
IL2-6/WTpooled	1.18964	0.456
IL7-5/WTpooled	0.75755	1
IL7-3/WTpooled	1.23928	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.93767	0.834
WT/WTpooled	1.17276	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	0.87553	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06756	0.875
DC3000/delta hrp 6h	0.94918	0.95
DC3000/delta hrp 12h	1.24798	1
DC3000/delta hrp 24h	0.99178	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.21915	0.076
DC3000 delta B/DC3000 delta AB	1.04604	0.503

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96169	1
Exp 36h	0.95597	0.879
Exp 60h	1.02684	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00338	1
Var 0h	0.76954	0.933
Var 12h I row2-row1	1.07242	0.473
Var 12h NI row2-row1	0.88195	0.546
Var 36h I row2-row1	0.78794	0.805
Var 36h NI row2-row1	0.97174	0.791
Var 60h I row2-row1	1.11339	0.543
Var 60h NI row2-row1	1.12378	0.904
Time course 0hI-0hNI	1.07614	0.799
Time course 12hI-12hNI	1.039	0.741
Time course 36hI-36hNI	0.97943	0.54
Time course 60hI-60hNI	1.16596	0.053

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)	1.04627	0.408
transgenic ySAMdc/azygous control (breaker)	1.0971	0.248
transgenic ySAMdc/azygous control (red)	1.01675	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04138	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.56867	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.5137	0.105
Manapal/WT (break)	1.12152	1
Manapal/WT (red)	0.87268	0.181