Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81304	0.148
27DAP/17DAP	0.9441	0.86
39DAP/27DAP	0.94773	0.663
41DAP/39DAP	1.51723	0.494
42DAP/41DAP	0.97283	1
43DAP/42DAP	0.8326	0.71
47DAP/43DAP	0.86336	0.609
52DAP/47DAP	1.58076	0.344
57DAP/52DAP	0.9587	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10582	0.241
17DAP/reference	0.95814	0.24
27DAP/reference	0.95102	0.101
39DAP/reference	0.9523	0.247
41DAP/reference	0.96524	0.085
42DAP/reference	1.09491	0.058
43DAP/reference	1.05199	0.287
47DAP/reference	0.94382	0.077
52DAP/reference	1.08726	0.335
57DAP/reference	0.9823	0.553

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00135	0.899
27DAP/17DAP	0.97316	0.878
39DAP/27DAP	1.07197	0.553
41DAP/39DAP	0.96663	0.959
42DAP/41DAP	1.11949	0.495
43DAP/42DAP	0.93171	0.383
47DAP/43DAP	0.98148	0.911
52DAP/47DAP	1.05459	0.81
57DAP/52DAP	0.97754	0.673
57DAP/7DAP	0.99008	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98992	0.613
17DAP/reference	0.99744	0.693
27DAP/reference	0.96797	0.094
39DAP/reference	0.9466	0.021
41DAP/reference	0.96682	0.247
42DAP/reference	0.9573	0.09
43DAP/reference	0.95338	0.115
47DAP/reference	0.97263	0.504
52DAP/reference	0.97961	0.398
57DAP/reference	0.96407	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14553	0.083
17DAP/reference	1.09711	0.156
27DAP/reference	1.17381	0.123
39DAP/reference	1.18366	0.335
41DAP/reference	1.1953	0.166
42DAP/reference	1.12822	0.555
43DAP/reference	1.16611	0.343
47DAP/reference	1.07268	0.603
52DAP/reference	1.16057	0.012
57DAP/reference	1.41265	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96296	0.112
17DAP/reference	1.06453	0.474
27DAP/reference	0.97732	0.376
39DAP/reference	0.94667	0.133
41DAP/reference	1.00553	1
42DAP/reference	1.00283	1
43DAP/reference	1.04752	0.755
47DAP/reference	1.07118	0.324
52DAP/reference	0.91239	0.303
57DAP/reference	1.11555	0.218

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94187	0.672
26DAP/20DAP	1.22369
34DAP/26DAP	0.97496	0.991
51DAP/34DAP	0.95939	0.703
52DAP/51DAP	1.0874
53DAP/52DAP	0.92861	0.581
55DAP/53DAP	1.11589	0.325
57DAP/55DAP	1.16911	0.274
62DAP/57DAP	1.03499	0.868
68DAP/62DAP	0.81584	0.227
68DAP/14DAP	0.98954	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11876	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.83843	0.058
Mature Green Tomato/Ripe Tomato	1.36267	0.077
Immature Eggplant/Mature Eggplant	0.82116	0.111
Ripe Pepper/Ripe Tomato	4.68536	1
Mature Eggplant/Ripe Tomato	11.2765	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06309	0.591
1-1-2/M82	1.01129	1
12-2/M82	0.97195	0.955
12-4/M82	0.96296
1-3/M82	1.01141	1
2-1-1/M82	1.15983
2-1/M82	1.53776
2-6/M82	0.99148	1
3-2/M82	0.95297	1
4-1-1/M82	1.01001	1
4-1/M82	0.93116	1
4-3-2/M82	0.93353	1
4-3/M82	0.98278	1
5-3/M82	1.05404	0.572
6-2/M82	1.00033	1
6-3/M82	0.97599	1
7-1/M82	1.02814	1
7-2/M82	0.95316	0.881
9-3-2/M82	0.74512	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01453	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79755	1
IL12-4/WTpooled	0.95351	1
IL1-4/WTpooled	0.86566
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	0.66451	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02044	1
DC3000/delta hrp 6h	1.12619	1
DC3000/delta hrp 12h	1.08108	1
DC3000/delta hrp 24h	0.87957	0.379

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68872	0.041
DC3000 delta B/DC3000 delta AB	0.86017	0.035

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88674	1
Exp 36h	0.98923	0.943
Exp 60h	0.81074	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98923	1
Var 0h	1.12788	0.782
Var 12h I row2-row1	1.09476	0.272
Var 12h NI row2-row1	1.17248	1
Var 36h I row2-row1	0.79192	0.805
Var 36h NI row2-row1	0.85212	0.61
Var 60h I row2-row1	1.13379	1
Var 60h NI row2-row1	1.0789	0.904
Time course 0hI-0hNI	1.02395	0.867
Time course 12hI-12hNI	0.94929	0.464
Time course 36hI-36hNI	0.82832	0.023
Time course 60hI-60hNI	0.64054	0.011

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)	0.95188	0.529
transgenic ySAMdc/azygous control (breaker)	0.90183	0.251
transgenic ySAMdc/azygous control (red)	1.0169	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06106	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.69538	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.3265	0.083
Manapal/WT (break)	0.95113	1
Manapal/WT (red)	0.73612	0.503