Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.3.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.63639	0.166
27DAP/17DAP	1.09393	0.883
39DAP/27DAP	1.03319	1
41DAP/39DAP	1.31732	0.535
42DAP/41DAP	0.9193	1
43DAP/42DAP	0.83668	0.684
47DAP/43DAP	1.02648	0.92
52DAP/47DAP	0.97186	0.789
57DAP/52DAP	0.83398	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94891	0.211
17DAP/reference	1.04303	0.258
27DAP/reference	0.99671	0.847
39DAP/reference	1.0039	0.857
41DAP/reference	1.01185	0.963
42DAP/reference	0.95813	0.124
43DAP/reference	0.97018	0.555
47DAP/reference	1.02774	0.627
52DAP/reference	0.9969	0.709
57DAP/reference	1.04232	0.762

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93502	0.578
27DAP/17DAP	1.05361	0.852
39DAP/27DAP	1.0262	0.854
41DAP/39DAP	1.3267	0.807
42DAP/41DAP	1.09564	0.852
43DAP/42DAP	0.86619	0.321
47DAP/43DAP	0.94792	0.734
52DAP/47DAP	0.98804	0.925
57DAP/52DAP	0.95035	0.646
57DAP/7DAP	1.23798

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98482	0.613
17DAP/reference	1.17288	0.574
27DAP/reference	1.16759	0.551
39DAP/reference	1.23706	0.035
41DAP/reference	1.35026	0.077
42DAP/reference	1.42689	0.013
43DAP/reference	1.35545	0.118
47DAP/reference	1.10806	0.377
52DAP/reference	1.58553	0.046
57DAP/reference	1.12797	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97978	0.72
17DAP/reference	1.00288	1
27DAP/reference	0.97646	0.483
39DAP/reference	1.06168	0.225
41DAP/reference	0.9121	0.041
42DAP/reference	0.87606	0.012
43DAP/reference	1.06253	0.575
47DAP/reference	0.91805	0.023
52DAP/reference	1.03864	0.559
57DAP/reference	1.0488	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24683	0.18
17DAP/reference	1.0195	0.918
27DAP/reference	1.50944	0.038
39DAP/reference	1.24969	0.211
41DAP/reference	1.23674	0.239
42DAP/reference	1.21101	0.627
43DAP/reference	0.98619	0.66
47DAP/reference	0.98392	0.525
52DAP/reference	0.99212	0.8
57DAP/reference	0.99975	0.79

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0509	0.966
26DAP/20DAP	1.15276
34DAP/26DAP	1.16088	0.542
51DAP/34DAP	1.38599	0.458
52DAP/51DAP	0.92699	1
53DAP/52DAP	0.91046	0.695
55DAP/53DAP	0.90874	0.563
57DAP/55DAP	1.12228	0.149
62DAP/57DAP	0.86615	0.871
68DAP/62DAP	0.93797	0.769
68DAP/14DAP	1.10346	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9843	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69338	0.187
Mature Green Tomato/Ripe Tomato	2.17032	0.07
Immature Eggplant/Mature Eggplant	1.31935	0.069
Ripe Pepper/Ripe Tomato	2.11053	1
Mature Eggplant/Ripe Tomato	0.94408	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91339	0.907
1-1-2/M82	1.01836
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	0.78657
3-2/M82	0.72338
4-1-1/M82	N/A	N/A
4-1/M82	1.25874
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.98387
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.7373
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8319	0.243
IL2-6/WTpooled	1.04038	0.788
IL7-5/WTpooled	0.85075	1
IL7-3/WTpooled	0.99745	1
IL12-4/WTpooled	1.09407	0.673
IL1-4/WTpooled	0.89737	0.457
WT/WTpooled	1.00071	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	1.08175	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01133	0.921
DC3000/delta hrp 6h	0.98605	0.95
DC3000/delta hrp 12h	1.02661	1
DC3000/delta hrp 24h	1.17358	0.221

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98803	1
Exp 36h	1.32437	0.409
Exp 60h	1.25539	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.91247	1
Var 12h I row2-row1	1.14531	0.228
Var 12h NI row2-row1	1.01443	0.34
Var 36h I row2-row1	1.24557	0.41
Var 36h NI row2-row1	2.64494	1
Var 60h I row2-row1	0.58487
Var 60h NI row2-row1	0.79486	0.818
Time course 0hI-0hNI	0.98355	0.985
Time course 12hI-12hNI	1.07528	0.682
Time course 36hI-36hNI	1.06062	0.651
Time course 60hI-60hNI	1.67802	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)	1.00907	0.798
transgenic ySAMdc/azygous control (breaker)	1.04932	1
transgenic ySAMdc/azygous control (red)	1.09036	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98534	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91581	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17251	0.105
Manapal/WT (break)	1.19247	0.123
Manapal/WT (red)	0.75604	0.242