Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.17.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87704	0.551
27DAP/17DAP	1.14933	0.881
39DAP/27DAP	1.0424	0.798
41DAP/39DAP	1.03577	0.925
42DAP/41DAP	0.93695	1
43DAP/42DAP	1.23369	0.999
47DAP/43DAP	1.13863	0.999
52DAP/47DAP	1.18373	0.943
57DAP/52DAP	1.21049	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8434	0.231
17DAP/reference	1.04745	0.957
27DAP/reference	1.02218	0.966
39DAP/reference	1.0898	0.722
41DAP/reference	1.01592	1
42DAP/reference	0.99717	0.413
43DAP/reference	0.95803	0.611
47DAP/reference	1.02629	0.636
52DAP/reference	0.85984	0.128
57DAP/reference	1.13722	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96292	0.629
27DAP/17DAP	1.03158	0.957
39DAP/27DAP	0.85081	0.3
41DAP/39DAP	1.2397	0.439
42DAP/41DAP	0.81935	0.078
43DAP/42DAP	0.98108	0.875
47DAP/43DAP	0.98857	0.933
52DAP/47DAP	0.80486	0.316
57DAP/52DAP	0.94775	0.612
57DAP/7DAP	0.75622	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92232	0.108
17DAP/reference	0.88875	0.108
27DAP/reference	0.84205	0.076
39DAP/reference	0.82779	0.064
41DAP/reference	0.67062	0.01
42DAP/reference	0.74045	0.011
43DAP/reference	0.95478	0.351
47DAP/reference	0.96394	0.671
52DAP/reference	0.905	0.15
57DAP/reference	1.05146	0.804

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93808	0.639
17DAP/reference	1.05003	0.594
27DAP/reference	0.85612	0.119
39DAP/reference	1.18095	0.355
41DAP/reference	0.82857	0.152
42DAP/reference	1.12863	0.794
43DAP/reference	1.09389	0.647
47DAP/reference	1.10682	0.212
52DAP/reference	1.083	0.882
57DAP/reference	0.81826	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84217	0.071
17DAP/reference	0.87748	0.239
27DAP/reference	0.8728	0.073
39DAP/reference	0.98515	0.591
41DAP/reference	0.93403	0.371
42DAP/reference	1.00167	0.816
43DAP/reference	0.95777	0.484
47DAP/reference	1.01781	0.731
52DAP/reference	0.97898	0.732
57DAP/reference	0.93644	0.438

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.86978	0.966
26DAP/20DAP	10.8525	0.369
34DAP/26DAP	0.87323	0.94
51DAP/34DAP	0.77034	0.546
52DAP/51DAP	1.05153	0.704
53DAP/52DAP	1.29339	0.398
55DAP/53DAP	1.13999	0.656
57DAP/55DAP	1.35237	0.898
62DAP/57DAP	0.92301	0.871
68DAP/62DAP	0.96309	0.863
68DAP/14DAP	1.15154	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.10963	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.3453	0.399
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.26262
Mature Eggplant/Ripe Tomato	0.59929	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.17072
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.46643

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03598	0.493
IL2-6/WTpooled	1.09062	0.788
IL7-5/WTpooled	0.72627	1
IL7-3/WTpooled	0.94998	1
IL12-4/WTpooled	1.04023	0.891
IL1-4/WTpooled	1.11236	1
WT/WTpooled	1.00443	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	1.66994	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93432	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.86547	1
DC3000/delta hrp 24h	0.99389	0.794

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25427	0.053
DC3000 delta B/DC3000 delta AB	1.38616	0.09

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08883	1
Var 0h	0.96968	1
Var 12h I row2-row1	0.93558	0.705
Var 12h NI row2-row1	1.17458	0.649
Var 36h I row2-row1	1.26232	0.489
Var 36h NI row2-row1	0.90325	0.706
Var 60h I row2-row1	0.72304	0.306
Var 60h NI row2-row1	0.81741	0.458
Time course 0hI-0hNI	1.17787	0.537
Time course 12hI-12hNI	1.1014	0.693
Time course 36hI-36hNI	1.62569	0.007
Time course 60hI-60hNI	2.11332	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	1.35149	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.40634	0.307
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.03335	1