Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.16.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15413	0.67
27DAP/17DAP	1.04824	0.92
39DAP/27DAP	0.76369	0.335
41DAP/39DAP	1.1307	0.575
42DAP/41DAP	1.14877	0.941
43DAP/42DAP	1.03972	1
47DAP/43DAP	0.89267	0.634
52DAP/47DAP	1.28562	0.596
57DAP/52DAP	0.92816	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99498	0.727
17DAP/reference	1.03045	0.476
27DAP/reference	0.98652	0.711
39DAP/reference	0.99139	0.874
41DAP/reference	1.06649	0.421
42DAP/reference	1.01439	0.756
43DAP/reference	0.96788	0.48
47DAP/reference	1.00552	1
52DAP/reference	1.07098	0.114
57DAP/reference	0.98572	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00133	0.847
27DAP/17DAP	1.01126	0.968
39DAP/27DAP	1.08494	0.534
41DAP/39DAP	1.15632	0.774
42DAP/41DAP	1.04953	0.719
43DAP/42DAP	1.03805	0.699
47DAP/43DAP	1.01732	0.93
52DAP/47DAP	1.04307	0.826
57DAP/52DAP	0.99271	0.838
57DAP/7DAP	1.12733	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92699	0.108
17DAP/reference	1.00079	1
27DAP/reference	0.94602	0.109
39DAP/reference	1.00215	1
41DAP/reference	1.00667	1
42DAP/reference	1.01654	0.534
43DAP/reference	1.00381	1
47DAP/reference	0.94969	0.222
52DAP/reference	1.00689	1
57DAP/reference	1.02128	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04671	0.308
17DAP/reference	1.06771	0.243
27DAP/reference	1.0103	1
39DAP/reference	0.96521	0.392
41DAP/reference	0.95978	0.262
42DAP/reference	1.04537	0.543
43DAP/reference	1.04892	0.655
47DAP/reference	0.99756	0.77
52DAP/reference	0.92634	0.28
57DAP/reference	0.96928	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92987	0.104
17DAP/reference	1.02388	0.585
27DAP/reference	1.00832	0.903
39DAP/reference	0.93589	0.024
41DAP/reference	1.00455	1
42DAP/reference	0.92461	0.071
43DAP/reference	0.96386	0.334
47DAP/reference	0.9846	0.538
52DAP/reference	0.93537	0.415
57DAP/reference	0.85624	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0912	0.916
26DAP/20DAP	0.9794	1
34DAP/26DAP	1.01044	1
51DAP/34DAP	0.92149	0.472
52DAP/51DAP	0.99746	1
53DAP/52DAP	0.91719	0.581
55DAP/53DAP	1.11694	0.599
57DAP/55DAP	1.13204	0.287
62DAP/57DAP	0.9473	0.871
68DAP/62DAP	0.9262	0.245
68DAP/14DAP	0.95166	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97714	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60984
Mature Green Tomato/Ripe Tomato	0.88241	0.055
Immature Eggplant/Mature Eggplant	4.23959	0.05
Ripe Pepper/Ripe Tomato	0.42772
Mature Eggplant/Ripe Tomato	0.68864	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08619	1
1-1-2/M82	0.90615	1
12-2/M82	N/A	N/A
12-4/M82	1.17108	1
1-3/M82	0.97318
2-1-1/M82	0.9994
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.97068
4-1-1/M82	0.86353	1
4-1/M82	1.39218	1
4-3-2/M82	0.9648	1
4-3/M82	0.74634
5-3/M82	1.0607	1
6-2/M82	N/A	N/A
6-3/M82	1.40391
7-1/M82	N/A	N/A
7-2/M82	0.98318	0.881
9-3-2/M82	0.76592	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.97901	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12909	1
IL12-4/WTpooled	1.10109	0.48
IL1-4/WTpooled	0.84033
WT/WTpooled	1.0371	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	1.6866	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97186	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.96137	1
DC3000/delta hrp 24h	1.14156	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20218	0.049
DC3000 delta B/DC3000 delta AB	1.04222	0.51

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	1.16289	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02455	1
Var 0h	0.89432	1
Var 12h I row2-row1	1.17197	0.19
Var 12h NI row2-row1	1.00773	1
Var 36h I row2-row1	1.0133	1
Var 36h NI row2-row1	0.86666	0.645
Var 60h I row2-row1	1.17328	1
Var 60h NI row2-row1	1.20644	0.904
Time course 0hI-0hNI	1.09231	0.799
Time course 12hI-12hNI	1.02769	0.818
Time course 36hI-36hNI	0.95679	0.373
Time course 60hI-60hNI	1.3682	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)	2.28406	0.541
transgenic ySAMdc/azygous control (breaker)	2.00881	0.248
transgenic ySAMdc/azygous control (red)	1.48028	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98034	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07718	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.13328	1
Manapal/WT (red)	1.65345	0.134