Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.20.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64924	0.128
27DAP/17DAP	1.25134	0.804
39DAP/27DAP	1.05048	0.857
41DAP/39DAP	0.77043	0.17
42DAP/41DAP	0.88213	1
43DAP/42DAP	1.23349	0.728
47DAP/43DAP	0.81229	0.433
52DAP/47DAP	1.63185	0.308
57DAP/52DAP	0.80009	0.765

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89603	0.269
17DAP/reference	0.85892	0.043
27DAP/reference	0.85793	0.109
39DAP/reference	0.90521	0.178
41DAP/reference	0.75883	0.049
42DAP/reference	0.91009	0.081
43DAP/reference	0.86281	0.063
47DAP/reference	0.90764	0.046
52DAP/reference	0.99915	0.668
57DAP/reference	1.05193	0.239

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.83008	0.049
27DAP/17DAP	1.00123	0.943
39DAP/27DAP	1.14186	0.422
41DAP/39DAP	0.99646	0.997
42DAP/41DAP	1.14971	0.571
43DAP/42DAP	1.0158	1
47DAP/43DAP	1.1243	0.699
52DAP/47DAP	0.98612	0.913
57DAP/52DAP	1.45764	0.154
57DAP/7DAP	1.38367	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06231	0.6
17DAP/reference	1.0887	0.627
27DAP/reference	1.19458	0.007
39DAP/reference	1.03703	0.74
41DAP/reference	1.06658	0.507
42DAP/reference	1.24951	0.018
43DAP/reference	1.03893	0.746
47DAP/reference	0.99777	1
52DAP/reference	1.05727	0.352
57DAP/reference	1.30043	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84193	0.087
17DAP/reference	0.67755	0.017
27DAP/reference	0.76657	0.115
39DAP/reference	0.82461	0.122
41DAP/reference	0.86674	0.103
42DAP/reference	0.81272	0.098
43DAP/reference	0.83099	0.066
47DAP/reference	1.03444	0.916
52DAP/reference	0.78624	0.023
57DAP/reference	1.23195	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99096	0.699
17DAP/reference	0.94677	0.381
27DAP/reference	1.06099	0.373
39DAP/reference	1.08849	0.296
41DAP/reference	1.08312	0.397
42DAP/reference	1.08495	0.529
43DAP/reference	0.9286	0.416
47DAP/reference	0.96426	0.452
52DAP/reference	1.09743	0.735
57DAP/reference	0.91139	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89009	1
26DAP/20DAP	1.62917	0.117
34DAP/26DAP	1.06024	1
51DAP/34DAP	1.04005	0.98
52DAP/51DAP	1.02789	0.925
53DAP/52DAP	0.91409	0.862
55DAP/53DAP	0.81717	0.376
57DAP/55DAP	1.05868	0.975
62DAP/57DAP	1.09794	0.868
68DAP/62DAP	1.12292	0.626
68DAP/14DAP	1.0091	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09056	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.49826	0.11
Mature Green Tomato/Ripe Tomato	4.55492
Immature Eggplant/Mature Eggplant	4.97348	0.05
Ripe Pepper/Ripe Tomato	0.73183	0.293
Mature Eggplant/Ripe Tomato	0.8658	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.57411	0.742
1-1-2/M82	N/A	N/A
12-2/M82	0.87509
12-4/M82	1.10385	1
1-3/M82	N/A	N/A
2-1-1/M82	0.92248
2-1/M82	1.32316
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	0.87478
4-1/M82	N/A	N/A
4-3-2/M82	0.90898
4-3/M82	1.19416	1
5-3/M82	1.02404	1
6-2/M82	0.91922	1
6-3/M82	1.02065	1
7-1/M82	N/A	N/A
7-2/M82	0.71283
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16485	0.277
IL2-6/WTpooled	0.82228	1
IL7-5/WTpooled	1.51953	0.792
IL7-3/WTpooled	1.24254	1
IL12-4/WTpooled	1.51734	0.553
IL1-4/WTpooled	1.13418	1
WT/WTpooled	1.05401	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	0.84893	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.33371	0.692
DC3000/delta hrp 6h	1.00836	0.95
DC3000/delta hrp 12h	1.05415	1
DC3000/delta hrp 24h	1.20179	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.43332	0.057
DC3000 delta B/DC3000 delta AB	1.25695	0.389

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18543	0.254
Exp 36h	1.42286	0.409
Exp 60h	1.08858	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97953	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.33428	0.296
Var 12h NI row2-row1	1.19746	1
Var 36h I row2-row1	1.02609	1
Var 36h NI row2-row1	1.22516	0.482
Var 60h I row2-row1	0.83165	0.285
Var 60h NI row2-row1	0.98781	1
Time course 0hI-0hNI	0.94022	0.516
Time course 12hI-12hNI	1.26624	0.014
Time course 36hI-36hNI	1.05203	0.799
Time course 60hI-60hNI	1.43534	0.01

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)	0.91296	0.391
transgenic ySAMdc/azygous control (breaker)	0.68664	0.251
transgenic ySAMdc/azygous control (red)	0.98208	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06952	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91845	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08531	1
Manapal/WT (break)	0.72244	0.299
Manapal/WT (red)	0.99715	1