Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.19.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.48948	0.034
27DAP/17DAP	1.94475	0.284
39DAP/27DAP	0.76315	0.425
41DAP/39DAP	0.88355	0.52
42DAP/41DAP	1.99973	0.034
43DAP/42DAP	1.05103	1
47DAP/43DAP	0.80033	0.407
52DAP/47DAP	0.8883	0.657
57DAP/52DAP	0.90949	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0699	0.735
17DAP/reference	1.42104	0.355
27DAP/reference	0.68732	0.444
39DAP/reference	0.69122	0.072
41DAP/reference	1.15898	0.013
42DAP/reference	0.75319	0.129
43DAP/reference	N/A	N/A
47DAP/reference	1.03578	0.885
52DAP/reference	1.25296	0.186
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03376	0.847
27DAP/17DAP	0.87982	0.614
39DAP/27DAP	1.08066	0.718
41DAP/39DAP	1.46218	0.028
42DAP/41DAP	0.83491	0.078
43DAP/42DAP	1.22328	0.382
47DAP/43DAP	0.8528	0.29
52DAP/47DAP	1.58508	0.18
57DAP/52DAP	1.89224	0.053
57DAP/7DAP	2.15583	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89316	0.326
17DAP/reference	1.08566	0.437
27DAP/reference	1.06662	0.453
39DAP/reference	1.17513	0.126
41DAP/reference	1.03129	0.977
42DAP/reference	0.91543	0.2
43DAP/reference	0.94443	0.305
47DAP/reference	0.88073	0.222
52DAP/reference	0.99253	0.679
57DAP/reference	0.90116	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82724	0.374
17DAP/reference	1.30637	1
27DAP/reference	0.79876	0.188
39DAP/reference	0.92756	0.359
41DAP/reference	0.909	0.262
42DAP/reference	1.00182	0.723
43DAP/reference	0.99301	0.692
47DAP/reference	0.94163	0.41
52DAP/reference	1.86522	0.069
57DAP/reference	1.26108	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07459	0.32
17DAP/reference	0.96826	0.601
27DAP/reference	0.78554	0.085
39DAP/reference	0.84238	0.022
41DAP/reference	0.9703	0.618
42DAP/reference	1.02032	0.994
43DAP/reference	1.22597	0.06
47DAP/reference	0.94862	0.525
52DAP/reference	0.70853	0.132
57DAP/reference	1.00378	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86735	0.997
26DAP/20DAP	1.16951	0.481
34DAP/26DAP	1.23781	1
51DAP/34DAP	0.98573	0.816
52DAP/51DAP	0.97301	1
53DAP/52DAP	1.10986	0.688
55DAP/53DAP	0.98421	0.852
57DAP/55DAP	1.39572	0.805
62DAP/57DAP	1.35629	0.902
68DAP/62DAP	1.12796	0.89
68DAP/14DAP	2.21888

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18427	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.63352	0.119
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	5.96916
Mature Eggplant/Ripe Tomato	7.43305	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92457
1-1-2/M82	1.26883	1
12-2/M82	0.86669	0.955
12-4/M82	1.17744	1
1-3/M82	N/A	N/A
2-1-1/M82	1.1581
2-1/M82	0.62213
2-6/M82	N/A	N/A
3-2/M82	0.99833
4-1-1/M82	N/A	N/A
4-1/M82	1.81612
4-3-2/M82	N/A	N/A
4-3/M82	1.32762	0.268
5-3/M82	0.94049	1
6-2/M82	1.16498	1
6-3/M82	1.08835
7-1/M82	N/A	N/A
7-2/M82	1.16257	0.324
9-3-2/M82	1.35871

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36448	0.277
IL2-6/WTpooled	0.67176	0.473
IL7-5/WTpooled	0.88666	1
IL7-3/WTpooled	1.87153	1
IL12-4/WTpooled	1.10662	0.516
IL1-4/WTpooled	1.18009	1
WT/WTpooled	1.03113	0.686

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	0.9455	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12494	0.823
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.86297
DC3000/delta hrp 24h	0.43761	0.034

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	0.7695

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	0.90835	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03846	1
Var 0h	1.36061	0.936
Var 12h I row2-row1	1.1881	0.506
Var 12h NI row2-row1	1.13365	0.649
Var 36h I row2-row1	1.0877	1
Var 36h NI row2-row1	2.1949	1
Var 60h I row2-row1	1.12937	0.562
Var 60h NI row2-row1	0.90657	0.977
Time course 0hI-0hNI	0.98764	0.991
Time course 12hI-12hNI	1.0673	0.684
Time course 36hI-36hNI	1.13779	0.799
Time course 60hI-60hNI	1.71192	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.17971	1
transgenic ySAMdc/azygous control (red)	1.03143	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09239	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19152	0.277

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)	N/A	N/A
Manapal/WT (red)	2.08471	0.15