Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.4.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98553	0.858
27DAP/17DAP	0.95495	0.941
39DAP/27DAP	0.78598	0.449
41DAP/39DAP	1.31068	0.236
42DAP/41DAP	0.99548	1
43DAP/42DAP	0.96239	0.909
47DAP/43DAP	0.86826	0.58
52DAP/47DAP	1.25382	0.534
57DAP/52DAP	1.03576	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12361	0.421
17DAP/reference	1.06688	0.1
27DAP/reference	1.11808	0.049
39DAP/reference	0.9813	0.941
41DAP/reference	1.02673	0.759
42DAP/reference	0.858	0.014
43DAP/reference	0.80723
47DAP/reference	1.06598	1
52DAP/reference	0.97742	0.58
57DAP/reference	0.86753	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97847	0.644
27DAP/17DAP	0.95109	0.58
39DAP/27DAP	1.02671	0.646
41DAP/39DAP	1.01956	0.887
42DAP/41DAP	0.96926	0.746
43DAP/42DAP	1.00466	0.83
47DAP/43DAP	1.02719	0.798
52DAP/47DAP	1.00916	0.973
57DAP/52DAP	1.04519	0.745
57DAP/7DAP	1.09309	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41546	0.091
17DAP/reference	1.22448	0.013
27DAP/reference	1.23967	0.008
39DAP/reference	1.33716	0.005
41DAP/reference	1.19981	0.141
42DAP/reference	1.42209	0.009
43DAP/reference	1.26526	0.018
47DAP/reference	1.05213	0.965
52DAP/reference	1.32816	0.012
57DAP/reference	1.33257	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20919	0.308
17DAP/reference	1.00982	0.979
27DAP/reference	0.91086	0.111
39DAP/reference	1.87635	1
41DAP/reference	0.88368	0.081
42DAP/reference	0.92294	0.212
43DAP/reference	0.96527	0.527
47DAP/reference	0.96416	0.261
52DAP/reference	0.95096	0.121
57DAP/reference	0.90777	0.073

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.67069	0.027
17DAP/reference	1.20862	0.303
27DAP/reference	1.16521	0.096
39DAP/reference	1.37123	0.048
41DAP/reference	1.10328	0.213
42DAP/reference	1.34669	0.204
43DAP/reference	1.22167	0.418
47DAP/reference	0.93046	0.286
52DAP/reference	1.33683	0.186
57DAP/reference	0.76261	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01588	0.966
26DAP/20DAP	0.94827	0.512
34DAP/26DAP	1.00625	1
51DAP/34DAP	1.09315	0.535
52DAP/51DAP	1.00479	0.965
53DAP/52DAP	0.9288	0.712
55DAP/53DAP	0.91437	0.544
57DAP/55DAP	0.91956	0.652
62DAP/57DAP	1.22423	0.303
68DAP/62DAP	1.15567	0.472
68DAP/14DAP	1.15746	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92537	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81528	0.286
Mature Green Tomato/Ripe Tomato	0.92742	0.522
Immature Eggplant/Mature Eggplant	0.61478	0.07
Ripe Pepper/Ripe Tomato	1.05495	1
Mature Eggplant/Ripe Tomato	1.43239	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12441	0.574
1-1-2/M82	0.99122	1
12-2/M82	0.99444	1
12-4/M82	0.91088	1
1-3/M82	0.91569	0.501
2-1-1/M82	1.06163	0.764
2-1/M82	1.003	1
2-6/M82	0.90301	1
3-2/M82	1.00305	1
4-1-1/M82	0.92114	1
4-1/M82	0.7584	1
4-3-2/M82	1.05011	1
4-3/M82	0.99851	1
5-3/M82	1.04395	1
6-2/M82	1.03587	1
6-3/M82	0.91088	0.982
7-1/M82	0.99494	1
7-2/M82	1.03033	1
9-3-2/M82	0.80108

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36866	0.277
IL2-6/WTpooled	0.12753	0.348
IL7-5/WTpooled	0.89632	1
IL7-3/WTpooled	0.80878	1
IL12-4/WTpooled	1.37196	0.553
IL1-4/WTpooled	0.85905	0.562
WT/WTpooled	1.06765	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	0.80087	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05142	0.921
DC3000/delta hrp 6h	1.02638	1
DC3000/delta hrp 12h	0.97237	1
DC3000/delta hrp 24h	0.91187	0.323

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91361	0.196
DC3000 delta B/DC3000 delta AB	0.92639	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88344	1
Exp 36h	0.68314	0.449
Exp 60h	0.61886	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00031	1
Var 0h	1.07151	1
Var 12h I row2-row1	0.77564
Var 12h NI row2-row1	1.13286	1
Var 36h I row2-row1	1.04123	0.908
Var 36h NI row2-row1	1.68398	0.276
Var 60h I row2-row1	1.93841
Var 60h NI row2-row1	1.0793	0.793
Time course 0hI-0hNI	0.96097	0.827
Time course 12hI-12hNI	1.04869	0.747
Time course 36hI-36hNI	0.82419	0.06
Time course 60hI-60hNI	0.56892	0.006

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)	1.30584	0.256
transgenic ySAMdc/azygous control (breaker)	1.17394	0.248
transgenic ySAMdc/azygous control (red)	1.32277	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99435	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.3979	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.54628	0.09
Manapal/WT (break)	1.61929	0.14
Manapal/WT (red)	1.20845	0.413