Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.11.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02885	0.912
27DAP/17DAP	1.09598	0.881
39DAP/27DAP	0.85959	0.522
41DAP/39DAP	2.09187	0.268
42DAP/41DAP	1.04802	1
43DAP/42DAP	0.99052	0.937
47DAP/43DAP	0.87832	0.603
52DAP/47DAP	1.16041	0.63
57DAP/52DAP	1.06825	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.12149	0.089
17DAP/reference	0.68595
27DAP/reference	2.24074	0.426
39DAP/reference	0.98665
41DAP/reference	1.61813
42DAP/reference	1.02676	1
43DAP/reference	0.6367	0.135
47DAP/reference	1.06163	0.84
52DAP/reference	1.02398
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89785	0.178
27DAP/17DAP	0.97386	0.887
39DAP/27DAP	1.32106	0.209
41DAP/39DAP	0.99721	1
42DAP/41DAP	1.04159	0.886
43DAP/42DAP	1.06729	0.324
47DAP/43DAP	0.90056	0.387
52DAP/47DAP	0.96982	0.905
57DAP/52DAP	0.94024	0.587
57DAP/7DAP	1.01588	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39848	0.035
17DAP/reference	1.16795	0.064
27DAP/reference	1.08421	0.551
39DAP/reference	1.29047	0.005
41DAP/reference	1.34727	0.011
42DAP/reference	1.67598	0.006
43DAP/reference	2.34632	0.006
47DAP/reference	1.96958	0.018
52DAP/reference	1.71907	0.007
57DAP/reference	1.3173	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01961	0.97
17DAP/reference	0.93902	0.23
27DAP/reference	1.47187	0.455
39DAP/reference	0.90996	0.102
41DAP/reference	0.76175	0.009
42DAP/reference	0.8161
43DAP/reference	0.67742	0.105
47DAP/reference	0.43978
52DAP/reference	0.83809	0.006
57DAP/reference	1.03398	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03742	0.723
17DAP/reference	1.13658	0.496
27DAP/reference	1.46937	0.017
39DAP/reference	1.64493	0.004
41DAP/reference	1.30334	0.008
42DAP/reference	1.34566	0.038
43DAP/reference	1.50907	0.01
47DAP/reference	N/A	N/A
52DAP/reference	1.27519	0.443
57DAP/reference	N/A	N/A

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04779	0.966
26DAP/20DAP	0.81124	0.244
34DAP/26DAP	0.95762	0.945
51DAP/34DAP	0.89546	0.252
52DAP/51DAP	1.16174	0.335
53DAP/52DAP	1.02839	0.882
55DAP/53DAP	1.17106	0.256
57DAP/55DAP	1.07201	0.915
62DAP/57DAP	1.00069	1
68DAP/62DAP	0.87592	0.609
68DAP/14DAP	1.1665	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.14164	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.00559	0.058
Mature Green Tomato/Ripe Tomato	0.89395	0.411
Immature Eggplant/Mature Eggplant	0.65831	0.066
Ripe Pepper/Ripe Tomato	0.98207	0.224
Mature Eggplant/Ripe Tomato	7.39463	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89298	0.708
1-1-2/M82	0.92505	1
12-2/M82	1.04026	1
12-4/M82	1.18375	0.611
1-3/M82	0.92077	0.501
2-1-1/M82	1.20578	0.293
2-1/M82	1.37627
2-6/M82	1.0203	1
3-2/M82	0.93084	1
4-1-1/M82	0.99107	1
4-1/M82	1.05622	1
4-3-2/M82	0.97578	1
4-3/M82	0.84772	1
5-3/M82	0.89557	0.447
6-2/M82	1.00929	1
6-3/M82	0.84535	1
7-1/M82	0.92559	0.408
7-2/M82	1.01373	1
9-3-2/M82	0.88919	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93042	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.9128	0.418
IL12-4/WTpooled	1.24871	0.646
IL1-4/WTpooled	1.05523	1
WT/WTpooled	1.00661	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	1.21083	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97074	1
DC3000/delta hrp 6h	0.90239	0.95
DC3000/delta hrp 12h	1.12974	1
DC3000/delta hrp 24h	0.97505	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.4016	0.042
DC3000 delta B/DC3000 delta AB	1.39582	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84157	0.245
Exp 36h	0.94745	0.82
Exp 60h	0.7599	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99565	1
Var 0h	0.96726	1
Var 12h I row2-row1	1.15455	0.296
Var 12h NI row2-row1	1.3425	1
Var 36h I row2-row1	1.26501	0.908
Var 36h NI row2-row1	2.49524	1
Var 60h I row2-row1	0.87236	0.582
Var 60h NI row2-row1	0.9326	0.932
Time course 0hI-0hNI	1.01921	1
Time course 12hI-12hNI	1.06202	0.603
Time course 36hI-36hNI	1.39313	0.014
Time course 60hI-60hNI	2.10828	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)	1.22113	0.212
transgenic ySAMdc/azygous control (breaker)	0.75978	0.137
transgenic ySAMdc/azygous control (red)	1.00292	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62763	1
Manapal/WT (break)	1.25988	0.123
Manapal/WT (red)	0.95133	0.728