Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12038	0.876
27DAP/17DAP	1.2294	1
39DAP/27DAP	1.07758	0.682
41DAP/39DAP	1.15066	0.85
42DAP/41DAP	0.90109	1
43DAP/42DAP	1.33551	0.962
47DAP/43DAP	0.95894	0.847
52DAP/47DAP	1.28815	0.651
57DAP/52DAP	1.14298	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88662	0.159
17DAP/reference	0.82134	0.012
27DAP/reference	0.96105	0.581
39DAP/reference	0.99634	0.957
41DAP/reference	0.84677	0.085
42DAP/reference	0.98522	0.425
43DAP/reference	0.93416	0.08
47DAP/reference	0.97712	0.418
52DAP/reference	0.98369	0.546
57DAP/reference	1.15197	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93781	0.595
27DAP/17DAP	0.96857	0.919
39DAP/27DAP	0.88544	0.462
41DAP/39DAP	1.34123	0.55
42DAP/41DAP	0.89568	0.429
43DAP/42DAP	0.91193	0.558
47DAP/43DAP	1.11029	0.749
52DAP/47DAP	1.21783	0.539
57DAP/52DAP	1.91185	0.05
57DAP/7DAP	0.93336	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89701	0.104
17DAP/reference	0.88043	0.094
27DAP/reference	0.92926	0.125
39DAP/reference	0.88967	0.039
41DAP/reference	0.91999	0.271
42DAP/reference	0.81165	0.027
43DAP/reference	0.93082	0.241
47DAP/reference	1.03094	1
52DAP/reference	1.02496	1
57DAP/reference	0.95564	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82318	0.024
17DAP/reference	0.76592	0.01
27DAP/reference	0.78003	0.02
39DAP/reference	0.84337	0.071
41DAP/reference	1.2338	0.862
42DAP/reference	0.86737	0.089
43DAP/reference	0.82635	0.077
47DAP/reference	0.94995	0.214
52DAP/reference	0.867	0.017
57DAP/reference	0.72042	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94542	0.311
17DAP/reference	0.93679	0.381
27DAP/reference	1.00642	0.934
39DAP/reference	0.91841	0.133
41DAP/reference	0.9632	0.459
42DAP/reference	0.82789	0.041
43DAP/reference	0.93524	0.281
47DAP/reference	0.99976	0.667
52DAP/reference	0.74471	0.14
57DAP/reference	1.11643	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9253	0.915
26DAP/20DAP	1.0692	1
34DAP/26DAP	1.07143	1
51DAP/34DAP	1.56236	0.049
52DAP/51DAP	1.01498	1
53DAP/52DAP	1.30358	0.25
55DAP/53DAP	1.03196	1
57DAP/55DAP	0.88204	0.527
62DAP/57DAP	1.29971	0.515
68DAP/62DAP	1.69614	0.033
68DAP/14DAP	1.64118	0.108

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95224	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76733	0.245
Mature Green Tomato/Ripe Tomato	0.74814	0.045
Immature Eggplant/Mature Eggplant	0.85484	0.066
Ripe Pepper/Ripe Tomato	1.152	0.256
Mature Eggplant/Ripe Tomato	1.39885	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96813
1-1-2/M82	1.11086
12-2/M82	N/A	N/A
12-4/M82	0.9637	1
1-3/M82	1.18527
2-1-1/M82	0.62836
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	1.166
5-3/M82	1.21133
6-2/M82	1.84347	0.253
6-3/M82	1.05791	1
7-1/M82	N/A	N/A
7-2/M82	0.89262
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72336	0.321
IL2-6/WTpooled	1.19919	0.788
IL7-5/WTpooled	1.10628	0.792
IL7-3/WTpooled	0.68324	0.31
IL12-4/WTpooled	0.91463	1
IL1-4/WTpooled	1.00947	1
WT/WTpooled	0.92373	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	1.26247	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.47867	0.692
DC3000/delta hrp 6h	0.91544	0.95
DC3000/delta hrp 12h	1.0123	1
DC3000/delta hrp 24h	1.34146	0.054

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	1.59388

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88327	1
Exp 36h	0.8508	0.406
Exp 60h	0.98582	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04503	1
Var 0h	0.50545	0.933
Var 12h I row2-row1	0.9023	0.705
Var 12h NI row2-row1	1.40364	1
Var 36h I row2-row1	1.23958	0.489
Var 36h NI row2-row1	0.61923	1
Var 60h I row2-row1	1.00633	1
Var 60h NI row2-row1	0.89248	1
Time course 0hI-0hNI	1.02238	1
Time course 12hI-12hNI	1.13531	0.833
Time course 36hI-36hNI	1.49991	0.799
Time course 60hI-60hNI	1.2988	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)	1.0645	0.541
transgenic ySAMdc/azygous control (breaker)	1.2809	0.172
transgenic ySAMdc/azygous control (red)	1.19449	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00851	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03103	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29311	0.14
Manapal/WT (break)	1.13691	0.381
Manapal/WT (red)	0.70849	0.181