Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.4.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00159	0.911
27DAP/17DAP	0.86022	0.641
39DAP/27DAP	1.00402	0.899
41DAP/39DAP	1.30255	0.701
42DAP/41DAP	1.06106	0.997
43DAP/42DAP	1.41375	0.831
47DAP/43DAP	0.89374	0.716
52DAP/47DAP	0.90362	0.677
57DAP/52DAP	0.92407	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07179	0.71
17DAP/reference	1.10703	0.057
27DAP/reference	1.10413	0.285
39DAP/reference	1.08211	0.57
41DAP/reference	1.09077	0.516
42DAP/reference	0.95814	0.242
43DAP/reference	0.98226	0.745
47DAP/reference	0.99497	0.568
52DAP/reference	0.88715	0.31
57DAP/reference	0.88567	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14011	0.728
27DAP/17DAP	0.97944	0.887
39DAP/27DAP	1.08174	0.832
41DAP/39DAP	0.99764	1
42DAP/41DAP	0.78088	0.019
43DAP/42DAP	0.90943	0.321
47DAP/43DAP	1.09994	0.724
52DAP/47DAP	1.00116	0.987
57DAP/52DAP	0.89907	0.657
57DAP/7DAP	0.92953	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88724	0.296
17DAP/reference	0.94426	0.338
27DAP/reference	0.92384	0.264
39DAP/reference	0.98175	0.552
41DAP/reference	1.23325	0.013
42DAP/reference	1.13834	0.534
43DAP/reference	1.05778	1
47DAP/reference	0.99775	0.671
52DAP/reference	1.22748	0.023
57DAP/reference	1.30497	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03614	0.724
17DAP/reference	1.08174	0.484
27DAP/reference	1.14728	0.297
39DAP/reference	0.9996	0.661
41DAP/reference	0.99083	0.57
42DAP/reference	0.93719	0.212
43DAP/reference	1.16084	0.356
47DAP/reference	1.00509	1
52DAP/reference	1.04049	0.882
57DAP/reference	1.06966	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99908	0.653
17DAP/reference	1.1345	0.545
27DAP/reference	1.03191
39DAP/reference	0.9678	0.544
41DAP/reference	0.94614	0.512
42DAP/reference	0.90004	0.361
43DAP/reference	1.10316	0.679
47DAP/reference	0.99473	0.593
52DAP/reference	0.91559	0.405
57DAP/reference	0.77798	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95113	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.2492	1
51DAP/34DAP	0.66509	0.252
52DAP/51DAP	1.25119	0.722
53DAP/52DAP	1.03204	0.983
55DAP/53DAP	0.82816	0.225
57DAP/55DAP	1.27483	0.393
62DAP/57DAP	1.2605	0.723
68DAP/62DAP	0.84505	0.227
68DAP/14DAP	0.44681	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35217	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.64076	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05359
1-1-2/M82	0.95523
12-2/M82	1.15516
12-4/M82	0.91477	1
1-3/M82	N/A	N/A
2-1-1/M82	0.78384	0.92
2-1/M82	N/A	N/A
2-6/M82	1.4063	0.329
3-2/M82	0.94567	1
4-1-1/M82	1.17174	0.966
4-1/M82	1.2711
4-3-2/M82	N/A	N/A
4-3/M82	0.7457	0.72
5-3/M82	0.89301	1
6-2/M82	1.0434
6-3/M82	N/A	N/A
7-1/M82	0.82926	0.509
7-2/M82	1.06993	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83862	0.243
IL2-6/WTpooled	1.01854	1
IL7-5/WTpooled	0.92907	1
IL7-3/WTpooled	1.05615	1
IL12-4/WTpooled	0.95766	0.71
IL1-4/WTpooled	0.95781	0.699
WT/WTpooled	1.03458	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	1.04313	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98048	1
DC3000/delta hrp 6h	0.8334	0.95
DC3000/delta hrp 12h	0.96397	1
DC3000/delta hrp 24h	0.91288	0.319

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82163	1
Exp 36h	1.00982	1
Exp 60h	0.8457	0.664

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	1.00757	1
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)	0.9597	0.428
transgenic ySAMdc/azygous control (breaker)	1.12862	1
transgenic ySAMdc/azygous control (red)	1.01421	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96754	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99934	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.22895	0.093
Manapal/WT (break)	1.09889	1
Manapal/WT (red)	1.14927	0.413