Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.8044	0.77
27DAP/17DAP	0.95624	0.947
39DAP/27DAP	1.23533	0.476
41DAP/39DAP	1.03505	1
42DAP/41DAP	1.00276	1
43DAP/42DAP	0.96871	0.91
47DAP/43DAP	0.98396	0.815
52DAP/47DAP	1.07787	0.869
57DAP/52DAP	1.02497	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17529	0.522
17DAP/reference	1.0351	0.528
27DAP/reference	0.99962	0.885
39DAP/reference	1.05116	0.403
41DAP/reference	1.0749	0.552
42DAP/reference	1.0263	0.869
43DAP/reference	1.08993	0.518
47DAP/reference	0.86209	0.148
52DAP/reference	0.8654	0.079
57DAP/reference	0.92277	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89848	0.336
27DAP/17DAP	1.01193	0.98
39DAP/27DAP	0.98988	0.953
41DAP/39DAP	0.97291	0.923
42DAP/41DAP	1.0023	0.932
43DAP/42DAP	1.06334	0.351
47DAP/43DAP	1.02075	0.906
52DAP/47DAP	0.90634	0.491
57DAP/52DAP	0.89301	0.147
57DAP/7DAP	0.95431	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88563	0.157
17DAP/reference	1.01932	0.688
27DAP/reference	0.92173	0.264
39DAP/reference	1.05706	0.57
41DAP/reference	0.9573	0.235
42DAP/reference	0.9524	0.355
43DAP/reference	0.98988	0.58
47DAP/reference	0.96453	0.671
52DAP/reference	0.89491	0.179
57DAP/reference	1.06942	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99996	0.907
17DAP/reference	1.06924	0.69
27DAP/reference	0.97958	0.554
39DAP/reference	0.91778	0.25
41DAP/reference	0.86156	0.068
42DAP/reference	0.92755	0.189
43DAP/reference	1.07182	0.655
47DAP/reference	1.04081	0.513
52DAP/reference	0.98313	0.537
57DAP/reference	1.23167	0.038

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90322	0.214
17DAP/reference	1.09746	0.189
27DAP/reference	1.11732	0.216
39DAP/reference	1.15164	0.094
41DAP/reference	0.94656	0.371
42DAP/reference	0.86253	0.019
43DAP/reference	0.92364	0.206
47DAP/reference	1.08748	0.704
52DAP/reference	0.9933	0.821
57DAP/reference	0.97305	0.516

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21972	0.878
26DAP/20DAP	0.93298	1
34DAP/26DAP	0.97905	0.991
51DAP/34DAP	0.92471	0.649
52DAP/51DAP	1.06177	0.606
53DAP/52DAP	0.75347	0.35
55DAP/53DAP	1.24865	0.244
57DAP/55DAP	1.02565	0.975
62DAP/57DAP	3.93475	0.678
68DAP/62DAP	0.91201	0.769
68DAP/14DAP	0.53898	0.078

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33991	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.90597	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.74432
Mature Eggplant/Ripe Tomato	0.62392

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88329	0.934
1-1-2/M82	0.97675	1
12-2/M82	N/A	N/A
12-4/M82	1.00046	1
1-3/M82	N/A	N/A
2-1-1/M82	1.32931
2-1/M82	N/A	N/A
2-6/M82	1.13426	0.695
3-2/M82	0.94601
4-1-1/M82	1.12806	0.977
4-1/M82	1.22066
4-3-2/M82	1.04506	1
4-3/M82	0.74998	0.578
5-3/M82	0.87369	0.49
6-2/M82	N/A	N/A
6-3/M82	1.01991	1
7-1/M82	0.95531	1
7-2/M82	0.98565	1
9-3-2/M82	1.00276	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.26313	0.125
IL2-6/WTpooled	1.26847	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.36336	0.293
IL12-4/WTpooled	0.89457	1
IL1-4/WTpooled	0.85926
WT/WTpooled	1.03483	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	1.32244	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03263	0.921
DC3000/delta hrp 6h	1.11477	1
DC3000/delta hrp 12h	1.04264	1
DC3000/delta hrp 24h	1.10696	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16933	0.06
DC3000 delta B/DC3000 delta AB	1.08269	0.528

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01923	1
Exp 36h	0.96883	0.943
Exp 60h	0.89139	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98058	1
Var 0h	1.16077	0.226
Var 12h I row2-row1	1.01556	1
Var 12h NI row2-row1	1.10453	1
Var 36h I row2-row1	1.06358	1
Var 36h NI row2-row1	0.70065	0.413
Var 60h I row2-row1	1.1309
Var 60h NI row2-row1	0.89516	0.756
Time course 0hI-0hNI	0.88761	0.247
Time course 12hI-12hNI	1.00206	1
Time course 36hI-36hNI	1.27763	0.039
Time course 60hI-60hNI	1.40573	0.01

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)	1.01629	0.36
transgenic ySAMdc/azygous control (breaker)	1.08575	1
transgenic ySAMdc/azygous control (red)	1.00965	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04493	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00539	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90512	1
Manapal/WT (break)	1.01288	1
Manapal/WT (red)	0.69823	0.181