Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02571	0.997
27DAP/17DAP	1.08326	0.859
39DAP/27DAP	0.95933	0.67
41DAP/39DAP	1.0696	0.806
42DAP/41DAP	1.03293	0.978
43DAP/42DAP	1.0934	1
47DAP/43DAP	1.00961	1
52DAP/47DAP	0.99275	0.906
57DAP/52DAP	1.09688	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98843	0.645
17DAP/reference	1.04267	0.282
27DAP/reference	0.97123	0.514
39DAP/reference	1.02364	0.534
41DAP/reference	0.94883	0.434
42DAP/reference	0.97017	0.196
43DAP/reference	0.97643	0.653
47DAP/reference	1.02453	0.646
52DAP/reference	0.85008	0.064
57DAP/reference	0.99707	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02463	0.774
27DAP/17DAP	1.03849	0.842
39DAP/27DAP	1.0489	0.57
41DAP/39DAP	1.00223	1
42DAP/41DAP	0.97242	0.721
43DAP/42DAP	1.06911	0.147
47DAP/43DAP	1.02293	0.812
52DAP/47DAP	1.01873	0.919
57DAP/52DAP	0.96963	0.605
57DAP/7DAP	1.05834	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97036	0.168
17DAP/reference	0.95555	0.108
27DAP/reference	0.919	0.03
39DAP/reference	1.01987	0.351
41DAP/reference	0.95686	0.203
42DAP/reference	1.0256	0.534
43DAP/reference	1.04544	0.093
47DAP/reference	0.89141	0.038
52DAP/reference	0.96508	0.332
57DAP/reference	0.98731	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90822	0.072
17DAP/reference	0.95216	0.17
27DAP/reference	0.91743	0.249
39DAP/reference	0.93105	0.119
41DAP/reference	0.98579	0.531
42DAP/reference	0.88876	0.089
43DAP/reference	0.93081	0.263
47DAP/reference	0.95137	0.12
52DAP/reference	0.93905	0.066
57DAP/reference	0.98497	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89638	0.077
17DAP/reference	0.90119	0.167
27DAP/reference	1.00519	1
39DAP/reference	0.93721	0.133
41DAP/reference	0.93777	0.264
42DAP/reference	0.83833	0.172
43DAP/reference	0.89683	0.12
47DAP/reference	0.93874	0.335
52DAP/reference	0.96687	0.663
57DAP/reference	0.71986	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97164	1
26DAP/20DAP	1.03755	0.875
34DAP/26DAP	1.05661	0.819
51DAP/34DAP	1.06561	0.654
52DAP/51DAP	0.9419	0.151
53DAP/52DAP	1.09738	0.444
55DAP/53DAP	0.96893	0.592
57DAP/55DAP	1.08461	0.947
62DAP/57DAP	1.05045	0.902
68DAP/62DAP	1.06494	0.85
68DAP/14DAP	1.1712	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01952	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70165	0.187
Mature Green Tomato/Ripe Tomato	1.23333	0.69
Immature Eggplant/Mature Eggplant	1.24313	0.056
Ripe Pepper/Ripe Tomato	1.53269	1
Mature Eggplant/Ripe Tomato	0.6571	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0204	1
1-1-2/M82	1.05768	1
12-2/M82	0.95588	0.955
12-4/M82	0.99974	1
1-3/M82	1.00176	1
2-1-1/M82	0.88826	0.465
2-1/M82	1.20303	1
2-6/M82	0.98081	1
3-2/M82	1.01008	1
4-1-1/M82	1.07672	1
4-1/M82	0.98905	1
4-3-2/M82	1.04503	1
4-3/M82	0.90731	0.611
5-3/M82	0.99461	1
6-2/M82	0.97963	1
6-3/M82	1.04654	1
7-1/M82	0.9673	0.803
7-2/M82	1.03474	1
9-3-2/M82	1.07082	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18476	0.277
IL2-6/WTpooled	0.9684	1
IL7-5/WTpooled	0.94629	1
IL7-3/WTpooled	0.93703	1
IL12-4/WTpooled	1.15022	0.557
IL1-4/WTpooled	1.0166	1
WT/WTpooled	0.96466	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	1.0549	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92988	1
DC3000/delta hrp 6h	1.15193	1
DC3000/delta hrp 12h	0.94998	1
DC3000/delta hrp 24h	1.14372	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07963	0.16
DC3000 delta B/DC3000 delta AB	1.09113	0.345

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12601	1
Exp 36h	1.28108	0.409
Exp 60h	1.44148	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99122	1
Var 0h	1.04857	1
Var 12h I row2-row1	1.08913	0.242
Var 12h NI row2-row1	1.00281	1
Var 36h I row2-row1	0.91323	1
Var 36h NI row2-row1	0.91751	0.432
Var 60h I row2-row1	1.03253	1
Var 60h NI row2-row1	0.98325	1
Time course 0hI-0hNI	1.05204	0.764
Time course 12hI-12hNI	1.03845	0.714
Time course 36hI-36hNI	1.17016	0.008
Time course 60hI-60hNI	1.39265	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)	1.05033	0.397
transgenic ySAMdc/azygous control (breaker)	1.09895	0.248
transgenic ySAMdc/azygous control (red)	1.08273	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96183	0.085

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64996	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84674	1
Manapal/WT (break)	0.87666	1
Manapal/WT (red)	0.74456	0.183