Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.4.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06145	0.893
27DAP/17DAP	0.91234	0.822
39DAP/27DAP	0.97158	0.719
41DAP/39DAP	1.41915	0.179
42DAP/41DAP	0.99328	1
43DAP/42DAP	0.94412	0.834
47DAP/43DAP	0.896	0.645
52DAP/47DAP	1.3921	0.436
57DAP/52DAP	0.98639	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9596	0.402
17DAP/reference	0.93824	0.129
27DAP/reference	0.94215	0.223
39DAP/reference	0.92622	0.11
41DAP/reference	0.91764	0.201
42DAP/reference	1.01104	0.68
43DAP/reference	0.96973	0.464
47DAP/reference	0.96882	0.191
52DAP/reference	1.02192	1
57DAP/reference	0.9517	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02937	0.619
27DAP/17DAP	0.98075	0.878
39DAP/27DAP	0.98318	0.821
41DAP/39DAP	1.04196	0.774
42DAP/41DAP	1.00074	0.925
43DAP/42DAP	0.98876	0.854
47DAP/43DAP	0.97852	0.846
52DAP/47DAP	1.02267	0.919
57DAP/52DAP	0.97527	0.632
57DAP/7DAP	0.99255	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83614	0.07
17DAP/reference	0.87023	0.011
27DAP/reference	0.86667	0.011
39DAP/reference	0.90433	0.021
41DAP/reference	0.91024	0.034
42DAP/reference	0.88711	0.021
43DAP/reference	0.86545	0.014
47DAP/reference	0.8597	0.044
52DAP/reference	0.91316	0.049
57DAP/reference	0.85113	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99163	0.884
17DAP/reference	0.90839	0.347
27DAP/reference	1.18478	0.526
39DAP/reference	0.90535	0.227
41DAP/reference	1.40486	0.45
42DAP/reference	0.9986	0.723
43DAP/reference	0.95648	0.45
47DAP/reference	0.97331	0.277
52DAP/reference	1.05542	0.3
57DAP/reference	0.91752	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85686	0.032
17DAP/reference	0.92007	0.162
27DAP/reference	0.89514	0.026
39DAP/reference	0.87201	0.022
41DAP/reference	0.89953	0.037
42DAP/reference	0.92856	0.071
43DAP/reference	0.95784	0.237
47DAP/reference	0.91459	0.168
52DAP/reference	0.84179	0.167
57DAP/reference	0.8449	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04081	0.966
26DAP/20DAP	1.00789	1
34DAP/26DAP	0.97033	0.841
51DAP/34DAP	1.05938	0.775
52DAP/51DAP	1.02679	0.821
53DAP/52DAP	0.96537	0.767
55DAP/53DAP	0.96463	0.735
57DAP/55DAP	0.98205	0.911
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.09657	0.422
68DAP/14DAP	1.09314	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97147	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92606	0.658
Mature Green Tomato/Ripe Tomato	0.90093	0.411
Immature Eggplant/Mature Eggplant	1.41832	0.239
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.14767	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91059	0.934
1-1-2/M82	1.04027	1
12-2/M82	0.97506	0.955
12-4/M82	0.9475	0.619
1-3/M82	0.94204	0.501
2-1-1/M82	0.85894	0.784
2-1/M82	1.03485
2-6/M82	0.98724	1
3-2/M82	1.07655	0.717
4-1-1/M82	1.07007	1
4-1/M82	1.05501	0.429
4-3-2/M82	0.87302	0.698
4-3/M82	0.88766	0.72
5-3/M82	1.03726	1
6-2/M82	1.10615	1
6-3/M82	1.01053	1
7-1/M82	1.01851	1
7-2/M82	0.96754	0.881
9-3-2/M82	0.80996

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.20638
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.65628	0.699
WT/WTpooled	1.20268

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	1.02954	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89825	1
DC3000/delta hrp 6h	1.0386	1
DC3000/delta hrp 12h	1.17152	1
DC3000/delta hrp 24h	0.99728	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79858	0.141
DC3000 delta B/DC3000 delta AB	0.94761	0.456

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20722	1
Exp 36h	1.43455	0.693
Exp 60h	1.23487	0.563

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	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.19327	0.289
transgenic ySAMdc/azygous control (breaker)	3.61063	0.248
transgenic ySAMdc/azygous control (red)	0.74049	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97429	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03714	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.02236	1
Manapal/WT (break)	1.13762	1
Manapal/WT (red)	0.14329	0.181