Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95516	0.671
27DAP/17DAP	1.18966	0.793
39DAP/27DAP	1.10664	0.899
41DAP/39DAP	1.03731	0.649
42DAP/41DAP	1.03133	0.986
43DAP/42DAP	0.93911	0.698
47DAP/43DAP	1.24888	0.727
52DAP/47DAP	0.95656	0.843
57DAP/52DAP	1.02427	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96745	0.465
17DAP/reference	0.97599	0.567
27DAP/reference	0.94194	0.182
39DAP/reference	0.978	0.691
41DAP/reference	0.99964	1
42DAP/reference	1.00214	0.755
43DAP/reference	1.03752	0.758
47DAP/reference	0.99598	0.636
52DAP/reference	0.93199	0.416
57DAP/reference	1.04334	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01535	0.841
27DAP/17DAP	1.02576	0.951
39DAP/27DAP	1.01135	0.824
41DAP/39DAP	1.04706	0.641
42DAP/41DAP	0.97	0.746
43DAP/42DAP	1.02994	0.382
47DAP/43DAP	0.98601	0.923
52DAP/47DAP	0.9872	0.93
57DAP/52DAP	0.94531	0.426
57DAP/7DAP	1.00968	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96803	0.049
17DAP/reference	0.90226	0.031
27DAP/reference	0.92272	0.019
39DAP/reference	0.9597	0.043
41DAP/reference	0.87342	0.016
42DAP/reference	0.94452	0.03
43DAP/reference	0.9101	0.11
47DAP/reference	0.86314	0.128
52DAP/reference	0.88157	0.106
57DAP/reference	0.81185	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96236	0.457
17DAP/reference	0.92962	0.049
27DAP/reference	0.90954	0.188
39DAP/reference	0.94223	0.144
41DAP/reference	0.88272	0.034
42DAP/reference	0.89411	0.135
43DAP/reference	0.98225	0.657
47DAP/reference	1.09213	0.169
52DAP/reference	0.92063	0.031
57DAP/reference	0.97149	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94779	0.158
17DAP/reference	0.97949	0.636
27DAP/reference	0.93319	0.097
39DAP/reference	0.89311	0.013
41DAP/reference	0.92376	0.07
42DAP/reference	0.92591	0.172
43DAP/reference	0.87388	0.041
47DAP/reference	0.96526	0.409
52DAP/reference	0.96303	0.529
57DAP/reference	0.85683	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04215	0.966
26DAP/20DAP	0.95595	1
34DAP/26DAP	1.04159	1
51DAP/34DAP	1.00353	1
52DAP/51DAP	0.9749	1
53DAP/52DAP	1.03242	0.921
55DAP/53DAP	1.06596	0.813
57DAP/55DAP	1.17593	0.626
62DAP/57DAP	1.09981	0.833
68DAP/62DAP	1.0538	0.936
68DAP/14DAP	1.20214	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91897	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.36874	0.075
Mature Green Tomato/Ripe Tomato	1.13115	0.048
Immature Eggplant/Mature Eggplant	1.21127	0.063
Ripe Pepper/Ripe Tomato	1.12771	1
Mature Eggplant/Ripe Tomato	2.03089	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93936	0.944
1-1-2/M82	0.9828	1
12-2/M82	0.93389	0.955
12-4/M82	1.00219	1
1-3/M82	0.97796	1
2-1-1/M82	1.04942
2-1/M82	N/A	N/A
2-6/M82	0.98401	1
3-2/M82	0.95016	0.752
4-1-1/M82	0.9869	1
4-1/M82	0.95072	1
4-3-2/M82	0.90578	1
4-3/M82	1.00647	1
5-3/M82	1.0016	1
6-2/M82	0.97786	1
6-3/M82	1.07272	1
7-1/M82	0.86469	0.803
7-2/M82	0.95841	0.796
9-3-2/M82	0.9113	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.68714	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04317	1
IL12-4/WTpooled	0.87985	1
IL1-4/WTpooled	1.44023
WT/WTpooled	0.9594	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	0.85079	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97998	1
DC3000/delta hrp 6h	1.33632	1
DC3000/delta hrp 12h	1.01071	1
DC3000/delta hrp 24h	1.15523	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99687	1
DC3000 delta B/DC3000 delta AB	0.96962	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0957	1
Exp 36h	0.90214	0.879
Exp 60h	1.01968	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0485	1
Var 0h	1.16176	0.339
Var 12h I row2-row1	1.65198	0.348
Var 12h NI row2-row1	0.98975	1
Var 36h I row2-row1	1.02301	1
Var 36h NI row2-row1	0.88452	0.522
Var 60h I row2-row1	1.06777	0.562
Var 60h NI row2-row1	1.09096	0.904
Time course 0hI-0hNI	1.04179	0.867
Time course 12hI-12hNI	1.05756	0.698
Time course 36hI-36hNI	1.02336	0.722
Time course 60hI-60hNI	1.26362	0.042

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)	0.91533	0.409
transgenic ySAMdc/azygous control (breaker)	1.35523	0.248
transgenic ySAMdc/azygous control (red)	1.39601	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95648	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8901	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73235	0.172
Manapal/WT (break)	1.04637	1
Manapal/WT (red)	0.88352	0.503