Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.15.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88992	0.475
27DAP/17DAP	0.85592	0.63
39DAP/27DAP	1.00927	0.798
41DAP/39DAP	1.06154	0.938
42DAP/41DAP	1.03775	1
43DAP/42DAP	0.88984	0.786
47DAP/43DAP	0.95071	0.788
52DAP/47DAP	1.25842	0.683
57DAP/52DAP	0.92991	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05197	0.29
17DAP/reference	1.08781	0.017
27DAP/reference	1.09527	0.045
39DAP/reference	1.05062	0.076
41DAP/reference	1.09376	0.203
42DAP/reference	1.10256	0.005
43DAP/reference	1.07113	0.083
47DAP/reference	1.0789	0.022
52DAP/reference	1.0082	1
57DAP/reference	1.02421	0.564

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91427	0.27
27DAP/17DAP	0.99796	0.969
39DAP/27DAP	1.00245	0.862
41DAP/39DAP	1.07194	0.735
42DAP/41DAP	0.95213	0.595
43DAP/42DAP	0.96573	0.503
47DAP/43DAP	0.98604	0.928
52DAP/47DAP	0.99877	0.975
57DAP/52DAP	0.99301	0.828
57DAP/7DAP	0.92586	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95846	0.495
17DAP/reference	0.78646	0.035
27DAP/reference	0.88677	0.082
39DAP/reference	0.88109	0.109
41DAP/reference	0.85862	0.133
42DAP/reference	0.85711	0.111
43DAP/reference	0.82007	0.04
47DAP/reference	0.96998	0.671
52DAP/reference	0.90654	0.232
57DAP/reference	0.95852	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91019	0.329
17DAP/reference	1.09859	0.375
27DAP/reference	0.95356	0.34
39DAP/reference	1.08091	0.233
41DAP/reference	1.07516	0.525
42DAP/reference	1.06295	0.543
43DAP/reference	1.07176	0.802
47DAP/reference	1.11345	0.013
52DAP/reference	1.04016	0.057
57DAP/reference	1.04085	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10411	0.237
17DAP/reference	1.00632	1
27DAP/reference	0.89389	0.27
39DAP/reference	0.86598	0.063
41DAP/reference	0.87624	0.064
42DAP/reference	0.77017	0.087
43DAP/reference	1.04985	0.895
47DAP/reference	1.03879	0.562
52DAP/reference	0.98132	0.838
57DAP/reference	0.89324	0.199

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03137	0.966
26DAP/20DAP	0.89168	0.512
34DAP/26DAP	1.02203	1
51DAP/34DAP	1.04477	0.949
52DAP/51DAP	0.99623	1
53DAP/52DAP	0.98244	0.929
55DAP/53DAP	0.97967	0.838
57DAP/55DAP	0.76827	0.297
62DAP/57DAP	1.01814	1
68DAP/62DAP	1.05176	1
68DAP/14DAP	0.8367	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96179	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.58841	0.287
Mature Green Tomato/Ripe Tomato	1.18339	0.577
Immature Eggplant/Mature Eggplant	0.86361	0.117
Ripe Pepper/Ripe Tomato	0.26773	0.224
Mature Eggplant/Ripe Tomato	1.37794	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00908	1
1-1-2/M82	0.8186	1
12-2/M82	1.02004	1
12-4/M82	0.94317	1
1-3/M82	1.00085	1
2-1-1/M82	1.04712	1
2-1/M82	1.16109
2-6/M82	0.92199	1
3-2/M82	0.86797	1
4-1-1/M82	0.96551	1
4-1/M82	0.88631	0.737
4-3-2/M82	0.93302	1
4-3/M82	0.95999	0.72
5-3/M82	1.01965	1
6-2/M82	1.00012	1
6-3/M82	1.01565	1
7-1/M82	0.94491	1
7-2/M82	0.95647	0.881
9-3-2/M82	0.86456	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04862
IL2-6/WTpooled	1.38971
IL7-5/WTpooled	1.55947
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	4.04321
IL1-4/WTpooled	0.87585	1
WT/WTpooled	1.03952	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	2.06181	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00371	1
DC3000/delta hrp 6h	1.10872	1
DC3000/delta hrp 12h	1.06033	1
DC3000/delta hrp 24h	1.064	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02651	0.648
DC3000 delta B/DC3000 delta AB	1.15737	0.209

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28311	1
Exp 36h	0.85071	0.699
Exp 60h	1.97952	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96962	1
Var 0h	1.88679	0.936
Var 12h I row2-row1	1.10865	0.204
Var 12h NI row2-row1	1.00639	1
Var 36h I row2-row1	0.9142	1
Var 36h NI row2-row1	0.96604	0.743
Var 60h I row2-row1	1.33522	0.562
Var 60h NI row2-row1	1.16572	0.904
Time course 0hI-0hNI	1.01449	1
Time course 12hI-12hNI	0.99267	1
Time course 36hI-36hNI	0.93408	0.127
Time course 60hI-60hNI	1.19879	0.012

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)	1.61596	0.287
transgenic ySAMdc/azygous control (breaker)	1.59266	1
transgenic ySAMdc/azygous control (red)	1.30643	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98725	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02131	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.20177	0.087
Manapal/WT (break)	0.95556	1
Manapal/WT (red)	1.06063	0.728