Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.18.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98469	0.801
27DAP/17DAP	0.80575	0.637
39DAP/27DAP	1.07735	0.894
41DAP/39DAP	1.19348	0.657
42DAP/41DAP	1.22665	0.685
43DAP/42DAP	1.09631	1
47DAP/43DAP	0.91319	0.68
52DAP/47DAP	1.29998	0.76
57DAP/52DAP	1.21548	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90275	0.128
17DAP/reference	1.1955	0.014
27DAP/reference	1.0292	0.831
39DAP/reference	1.10139	0.277
41DAP/reference	1.18617	0.018
42DAP/reference	0.92377	0.045
43DAP/reference	1.08982	0.233
47DAP/reference	0.98113	0.418
52DAP/reference	0.77217	0.043
57DAP/reference	0.78831	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97211	0.732
27DAP/17DAP	1.11146	0.976
39DAP/27DAP	1.13374	0.499
41DAP/39DAP	1.11471	0.705
42DAP/41DAP	0.7744	0.141
43DAP/42DAP	0.96105	0.665
47DAP/43DAP	1.11842	0.765
52DAP/47DAP	1.34902	0.422
57DAP/52DAP	1.55289	0.073
57DAP/7DAP	1.19239	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25378	0.286
17DAP/reference	1.31426	0.012
27DAP/reference	1.25131	0.049
39DAP/reference	1.28863	0.107
41DAP/reference	1.45662	0.024
42DAP/reference	1.17727	0.132
43DAP/reference	1.43625	0.02
47DAP/reference	1.18767	0.21
52DAP/reference	1.329	0.034
57DAP/reference	1.6656	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9799	0.77
17DAP/reference	0.94033	0.307
27DAP/reference	0.85779	0.167
39DAP/reference	0.87103	0.173
41DAP/reference	1.06888	0.599
42DAP/reference	0.87249	0.089
43DAP/reference	0.99334	0.657
47DAP/reference	0.96578	0.319
52DAP/reference	0.91541	0.101
57DAP/reference	1.17804	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09816	0.13
17DAP/reference	1.02185	1
27DAP/reference	1.37089	0.044
39DAP/reference	1.2969	0.026
41DAP/reference	1.27106	0.257
42DAP/reference	1.14865	0.307
43DAP/reference	1.1087	0.617
47DAP/reference	0.99364	0.574
52DAP/reference	1.21115	0.225
57DAP/reference	0.82984	0.129

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13993	0.966
26DAP/20DAP	1.94563
34DAP/26DAP	1.04209	1
51DAP/34DAP	0.82885	0.504
52DAP/51DAP	1.23397	0.439
53DAP/52DAP	1.37775	0.806
55DAP/53DAP	1.44793	0.511
57DAP/55DAP	0.68486	0.059
62DAP/57DAP	1.05005	0.994
68DAP/62DAP	1.55452	0.565
68DAP/14DAP	1.17566	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73998	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.11456
Immature Eggplant/Mature Eggplant	1.62588	0.174
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.25235	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.82906
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.01696	1
1-3/M82	1.23367
2-1-1/M82	1.01235	1
2-1/M82	N/A	N/A
2-6/M82	1.48216
3-2/M82	1.04746
4-1-1/M82	1.20601
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.16814	1
5-3/M82	1.0869	1
6-2/M82	N/A	N/A
6-3/M82	1.06427	1
7-1/M82	0.75798
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	N/A	N/A
IL2-6/WTpooled	0.9873	0.473
IL7-5/WTpooled	0.52727
IL7-3/WTpooled	1.15699	1
IL12-4/WTpooled	1.11029	0.673
IL1-4/WTpooled	0.77627	0.699
WT/WTpooled	1.15154	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	1.49664	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.31134	1
DC3000/delta hrp 12h	1.16954	1
DC3000/delta hrp 24h	1.13274	0.192

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.6566
DC3000 delta B/DC3000 delta AB	1.99354	0.13

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.27106	1
Exp 36h	1.40318	0.489
Exp 60h	1.6337	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05375	1
Var 0h	0.61352	0.933
Var 12h I row2-row1	1.15217	0.296
Var 12h NI row2-row1	1.4378	0.649
Var 36h I row2-row1	0.90004	1
Var 36h NI row2-row1	0.88856	0.743
Var 60h I row2-row1	0.79221	0.287
Var 60h NI row2-row1	0.65946	0.483
Time course 0hI-0hNI	1.33052	0.451
Time course 12hI-12hNI	2.4108	0.005
Time course 36hI-36hNI	3.59572	0.004
Time course 60hI-60hNI	9.19726	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)	1.25067	0.331
transgenic ySAMdc/azygous control (breaker)	0.60346	0.132
transgenic ySAMdc/azygous control (red)	1.03379	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01954	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78558	0.238

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)	0.8993	1
Manapal/WT (red)	0.60636	0.315