Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20309	0.697
27DAP/17DAP	1.22638	0.829
39DAP/27DAP	0.98709	0.749
41DAP/39DAP	0.89941	0.623
42DAP/41DAP	1.14719	0.899
43DAP/42DAP	0.98554	0.931
47DAP/43DAP	0.89609	0.645
52DAP/47DAP	1.23439	0.605
57DAP/52DAP	1.01972	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88842	0.211
17DAP/reference	0.94676	0.474
27DAP/reference	1.15675	0.478
39DAP/reference	1.093	0.603
41DAP/reference	0.90453	0.341
42DAP/reference	0.98304	0.425
43DAP/reference	1.01789	0.904
47DAP/reference	1.09738	0.391
52DAP/reference	1.5266	0.695
57DAP/reference	1.25083	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14724	0.252
27DAP/17DAP	0.9019	0.508
39DAP/27DAP	1.11928	0.383
41DAP/39DAP	1.03064	0.895
42DAP/41DAP	1.0449	0.708
43DAP/42DAP	1.01913	0.83
47DAP/43DAP	0.99478	0.99
52DAP/47DAP	1.00334	0.975
57DAP/52DAP	1.12755	0.547
57DAP/7DAP	0.91973	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83158	0.122
17DAP/reference	0.92317	0.253
27DAP/reference	0.85315	0.062
39DAP/reference	0.67147	0.011
41DAP/reference	0.86207	0.073
42DAP/reference	0.7168	0.011
43DAP/reference	0.84133	0.082
47DAP/reference	0.82721	0.036
52DAP/reference	1.05343	0.781
57DAP/reference	0.85866	0.149

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03835
17DAP/reference	0.80629	0.109
27DAP/reference	1.0329	0.642
39DAP/reference	0.95483	0.485
41DAP/reference	1.05126	0.702
42DAP/reference	1.18498	0.22
43DAP/reference	1.00734	0.801
47DAP/reference	1.08964	0.556
52DAP/reference	0.95667	0.433
57DAP/reference	0.82599	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76098	0.042
17DAP/reference	0.92604	0.328
27DAP/reference	0.85587	0.113
39DAP/reference	0.93373	0.147
41DAP/reference	1.04901	0.734
42DAP/reference	0.83252	0.087
43DAP/reference	1.14365	0.935
47DAP/reference	0.94537	0.383
52DAP/reference	1.12073	0.928
57DAP/reference	0.98562	0.652

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.78907	0.966
26DAP/20DAP	1.3713	0.11
34DAP/26DAP	1.04471	1
51DAP/34DAP	1.09259	0.637
52DAP/51DAP	0.95062	1
53DAP/52DAP	1.345	0.095
55DAP/53DAP	1.05957	0.584
57DAP/55DAP	1.0439	0.975
62DAP/57DAP	0.92903	0.871
68DAP/62DAP	1.65353	0.747
68DAP/14DAP	1.34031	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11986	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92469	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.55784	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.38103	1
12-2/M82	N/A	N/A
12-4/M82	1.21623
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.41614
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	N/A	N/A
5-3/M82	0.45712
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.18173
7-2/M82	N/A	N/A
9-3-2/M82	1.32173

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75656	0.321
IL2-6/WTpooled	0.87245	0.473
IL7-5/WTpooled	0.54332	1
IL7-3/WTpooled	1.17798	1
IL12-4/WTpooled	1.07856	0.516
IL1-4/WTpooled	0.91846	0.834
WT/WTpooled	1.07835	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	0.99752	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95299	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09823	1
DC3000/delta hrp 24h	0.71197	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89834	0.691
DC3000 delta B/DC3000 delta AB	0.96314	0.766

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02592	1
Var 0h	1.40842	0.98
Var 12h I row2-row1	0.91161	0.338
Var 12h NI row2-row1	0.96729	0.906
Var 36h I row2-row1	0.98313	1
Var 36h NI row2-row1	0.88231	0.61
Var 60h I row2-row1	0.98164	1
Var 60h NI row2-row1	0.92428	0.818
Time course 0hI-0hNI	1.00598	1
Time course 12hI-12hNI	0.94374	0.458
Time course 36hI-36hNI	0.97331	0.504
Time course 60hI-60hNI	1.023	0.575

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.81769	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.02636	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07552	1
Manapal/WT (break)	0.90145	1
Manapal/WT (red)	1.80911	0.164