Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.3.17.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01008	1
27DAP/17DAP	1.36558	0.747
39DAP/27DAP	0.99763	0.782
41DAP/39DAP	0.97777	0.868
42DAP/41DAP	1.40742	0.642
43DAP/42DAP	1.0139	0.937
47DAP/43DAP	0.9332	0.736
52DAP/47DAP	0.92616	0.769
57DAP/52DAP	1.06007	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17566	0.121
17DAP/reference	1.37152	0.03
27DAP/reference	1.03009	0.782
39DAP/reference	1.13461	0.335
41DAP/reference	1.26766	0.062
42DAP/reference	1.11165	0.13
43DAP/reference	1.04219	0.838
47DAP/reference	0.94508	0.224
52DAP/reference	1.34356	0.045
57DAP/reference	1.04247	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20778	0.406
27DAP/17DAP	1.30991	0.264
39DAP/27DAP	1.19439	0.353
41DAP/39DAP	0.98256	0.986
42DAP/41DAP	1.22254	0.425
43DAP/42DAP	1.18615	0.554
47DAP/43DAP	1.02498	0.95
52DAP/47DAP	1.23129	0.38
57DAP/52DAP	1.32383	0.455
57DAP/7DAP	1.5565	0.203

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83379	0.095
17DAP/reference	0.95998	0.389
27DAP/reference	0.85898	0.015
39DAP/reference	0.95156	0.411
41DAP/reference	1.00682	0.677
42DAP/reference	0.88454	0.048
43DAP/reference	0.85757	0.139
47DAP/reference	1.20679	0.318
52DAP/reference	0.98035	0.523
57DAP/reference	0.88901	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18363	0.687
17DAP/reference	1.05811	1
27DAP/reference	1.0425	0.598
39DAP/reference	1.14131	0.449
41DAP/reference	1.24776	0.126
42DAP/reference	1.28485	0.049
43DAP/reference	1.37477	0.065
47DAP/reference	1.09864	0.527
52DAP/reference	1.1652	0.667
57DAP/reference	0.93093	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90017	0.268
17DAP/reference	1.02255	1
27DAP/reference	0.98856	0.657
39DAP/reference	0.92333	0.179
41DAP/reference	1.17164	0.306
42DAP/reference	1.17869	0.154
43DAP/reference	1.1287	0.482
47DAP/reference	0.86276	0.139
52DAP/reference	0.81309	0.164
57DAP/reference	1.2182	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97071	1
26DAP/20DAP	1.48737	0.273
34DAP/26DAP	0.90458	0.857
51DAP/34DAP	1.26478	0.73
52DAP/51DAP	0.91349	1
53DAP/52DAP	0.89616	0.695
55DAP/53DAP	0.87163	0.417
57DAP/55DAP	1.09838	0.935
62DAP/57DAP	1.11798	1
68DAP/62DAP	0.97126	0.863
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.20899	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.69165	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.41105	N/A
Mature Eggplant/Ripe Tomato	0.47312	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05664	N/A
1-1-2/M82	1.05024	1
12-2/M82	N/A	N/A
12-4/M82	1.1253	1
1-3/M82	N/A	N/A
2-1-1/M82	0.72744	N/A
2-1/M82	1.11851	0.345
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	1.21984	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.81786	0.698
4-3/M82	1.14475	1
5-3/M82	1.06241	1
6-2/M82	1.08506	0.253
6-3/M82	0.91277	N/A
7-1/M82	N/A	N/A
7-2/M82	0.9722	1
9-3-2/M82	0.99868	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71421	N/A
IL2-6/WTpooled	0.99533	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97301	1
IL12-4/WTpooled	1.03282	1
IL1-4/WTpooled	1.05096	1
WT/WTpooled	1.04544	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	1.305	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07272	0.921
DC3000/delta hrp 6h	0.78604	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.12468	0.422

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	0.61361	N/A

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	0.97596	1
Var 0h	0.92698	1
Var 12h I row2-row1	1.03934	0.736
Var 12h NI row2-row1	1.22804	0.649
Var 36h I row2-row1	1.26095	1
Var 36h NI row2-row1	0.80893	0.61
Var 60h I row2-row1	0.86425	0.374
Var 60h NI row2-row1	0.71384	0.818
Time course 0hI-0hNI	1.02532	0.852
Time course 12hI-12hNI	0.96598	0.82
Time course 36hI-36hNI	1.04455	0.513
Time course 60hI-60hNI	1.51864	0.013

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)	0.90737	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	1.54263	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10263	0.09
Manapal/WT (break)	2.08627	0.183
Manapal/WT (red)	0.73674	0.242