Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.3.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25511	0.403
27DAP/17DAP	1.20676	1
39DAP/27DAP	0.60888	0.338
41DAP/39DAP	0.82945	0.377
42DAP/41DAP	1.02499	1
43DAP/42DAP	0.99984	0.937
47DAP/43DAP	1.27195	0.689
52DAP/47DAP	1.54718	0.307
57DAP/52DAP	1.29523	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20298	0.5
17DAP/reference	0.98463	0.858
27DAP/reference	0.77531	0.385
39DAP/reference	0.81029	0.254
41DAP/reference	0.98551	0.814
42DAP/reference	0.68159	0.006
43DAP/reference	1.00947
47DAP/reference	1.24493	0.264
52DAP/reference	0.80297	0.115
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88446	0.442
27DAP/17DAP	0.98317	0.943
39DAP/27DAP	1.04893	0.742
41DAP/39DAP	1.22606	0.774
42DAP/41DAP	1.02933	0.841
43DAP/42DAP	0.94677	0.684
47DAP/43DAP	0.93367	0.815
52DAP/47DAP	1.02435	1
57DAP/52DAP	1.02548	0.905
57DAP/7DAP	0.43578	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02416	1
17DAP/reference	0.90744	0.295
27DAP/reference	1.10719	0.551
39DAP/reference	1.34049	0.05
41DAP/reference	1.17535	0.416
42DAP/reference	1.32632	0.037
43DAP/reference	1.03998	1
47DAP/reference	0.94693	0.383
52DAP/reference	1.38026	0.014
57DAP/reference	1.19444	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73372	0.06
17DAP/reference	1.1572	0.171
27DAP/reference	1.34593	0.067
39DAP/reference	1.09348	1
41DAP/reference	0.91363	0.226
42DAP/reference	0.99094	0.655
43DAP/reference	1.04528	0.736
47DAP/reference	1.00264	0.73
52DAP/reference	1.11205	0.074
57DAP/reference	0.86418	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18419	0.588
17DAP/reference	0.91625	0.537
27DAP/reference	1.02758
39DAP/reference	1.29845	0.377
41DAP/reference	1.35767	0.083
42DAP/reference	1.17516	0.163
43DAP/reference	1.40392	0.023
47DAP/reference	0.95599	0.421
52DAP/reference	0.92906	0.296
57DAP/reference	1.22696	0.106

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06379	0.966
26DAP/20DAP	1.58875
34DAP/26DAP	0.76546	0.841
51DAP/34DAP	0.59574	0.071
52DAP/51DAP	1.24753	0.915
53DAP/52DAP	0.96799	0.868
55DAP/53DAP	1.03327	0.917
57DAP/55DAP	0.85443	0.437
62DAP/57DAP	0.74178	0.681
68DAP/62DAP	0.89868	0.722
68DAP/14DAP	0.83093	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86295	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.25815
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.17821
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.12837
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	1.18157
3-2/M82	N/A	N/A
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	1.06623
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11167	1
IL2-6/WTpooled	0.89616	0.348
IL7-5/WTpooled	1.16059	1
IL7-3/WTpooled	1.31061	1
IL12-4/WTpooled	1.08544	0.839
IL1-4/WTpooled	1.08751	1
WT/WTpooled	0.89369	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98944	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.99598	1
DC3000/delta hrp 24h	1.01614	0.821

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	0.9701	1
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	1.0059	1
Var 0h	0.83518	0.933
Var 12h I row2-row1	1.20513	0.183
Var 12h NI row2-row1	1.05285	1
Var 36h I row2-row1	1.03619	1
Var 36h NI row2-row1	0.86379	0.584
Var 60h I row2-row1	0.94988	0.582
Var 60h NI row2-row1	0.85133	0.431
Time course 0hI-0hNI	1.06489	0.867
Time course 12hI-12hNI	1.0248	0.868
Time course 36hI-36hNI	1.05493	0.58
Time course 60hI-60hNI	2.05272	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)	0.97583	0.614
transgenic ySAMdc/azygous control (breaker)	0.92102	0.251
transgenic ySAMdc/azygous control (red)	1.00641	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98693	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80279	1
Manapal/WT (break)	1.05029	1
Manapal/WT (red)	0.86777	0.424