Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.3.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14235	0.681
27DAP/17DAP	1.08321	0.859
39DAP/27DAP	0.93218	0.641
41DAP/39DAP	1.08254	0.735
42DAP/41DAP	1.11182	0.898
43DAP/42DAP	1.24986	0.793
47DAP/43DAP	1.46263	0.364
52DAP/47DAP	0.66257	0.214
57DAP/52DAP	0.98327	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94719	0.503
17DAP/reference	1.17811	0.764
27DAP/reference	1.08461	0.684
39DAP/reference	0.94545	0.72
41DAP/reference	1.95202	0.021
42DAP/reference	1.01662	0.688
43DAP/reference	1.0023
47DAP/reference	0.75479	0.345
52DAP/reference	1.06642	0.878
57DAP/reference	0.36589

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10746	0.445
27DAP/17DAP	0.95134	0.684
39DAP/27DAP	0.76227	0.033
41DAP/39DAP	0.96349	0.923
42DAP/41DAP	0.9683	0.721
43DAP/42DAP	0.94958	0.503
47DAP/43DAP	1.01413	0.973
52DAP/47DAP	1.00615	0.97
57DAP/52DAP	1.05218	0.877
57DAP/7DAP	0.88761	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12218	0.747
17DAP/reference	1.32649	0.328
27DAP/reference	1.27839	0.551
39DAP/reference	1.07304	0.511
41DAP/reference	0.88003	0.259
42DAP/reference	1.14104	0.686
43DAP/reference	1.2026	0.273
47DAP/reference	1.49142	0.241
52DAP/reference	1.08361	0.684
57DAP/reference	1.00278	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44003	0.074
17DAP/reference	1.15028	0.644
27DAP/reference	0.92291	0.381
39DAP/reference	1.22893	0.146
41DAP/reference	1.10047	0.666
42DAP/reference	1.06226	1
43DAP/reference	0.92363	0.269
47DAP/reference	1.15817	0.695
52DAP/reference	1.15332	0.559
57DAP/reference	1.19939	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2265	0.602
17DAP/reference	1.15103	0.728
27DAP/reference	1.13867	1
39DAP/reference	1.31735	0.013
41DAP/reference	0.91666	0.293
42DAP/reference	1.07204	0.877
43DAP/reference	1.30362	0.275
47DAP/reference	0.8924	0.409
52DAP/reference	0.88466	0.395
57DAP/reference	0.86921	0.238

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.74012	0.305
26DAP/20DAP	0.84989	0.244
34DAP/26DAP	0.94909	0.763
51DAP/34DAP	1.00769	0.96
52DAP/51DAP	0.89462	1
53DAP/52DAP	1.02029	0.901
55DAP/53DAP	1.08879	0.696
57DAP/55DAP	1.11613	0.745
62DAP/57DAP	1.03215	1
68DAP/62DAP	0.98317	0.81
68DAP/14DAP	0.55681	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97132	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.1591
Mature Green Tomato/Ripe Tomato	3.15864	0.015
Immature Eggplant/Mature Eggplant	1.31016	0.363
Ripe Pepper/Ripe Tomato	0.49158	0.224
Mature Eggplant/Ripe Tomato	0.59218	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90722	0.708
1-1-2/M82	0.99098	1
12-2/M82	1.08777	1
12-4/M82	0.94367	1
1-3/M82	0.82673	0.441
2-1-1/M82	0.85395	0.465
2-1/M82	0.82268	0.345
2-6/M82	1.19402	0.695
3-2/M82	1.09774
4-1-1/M82	0.99057	1
4-1/M82	1.18261	0.853
4-3-2/M82	1.03134	1
4-3/M82	0.80563	0.611
5-3/M82	0.93855	1
6-2/M82	1.37839	1
6-3/M82	0.9039
7-1/M82	N/A	N/A
7-2/M82	0.95151	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91987	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.09747	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.97753	1
WT/WTpooled	N/A	N/A

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	1.21305	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97491	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01373	1
DC3000/delta hrp 24h	0.90937	0.269

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61253	0.028
DC3000 delta B/DC3000 delta AB	0.44263	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8331	1
Exp 36h	N/A	N/A
Exp 60h	0.96822	0.994

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	N/A	N/A
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)	1.61078	0.326
transgenic ySAMdc/azygous control (breaker)	0.69489	0.251
transgenic ySAMdc/azygous control (red)	1.45433	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.77618	0.046

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)	1.11859	1
Manapal/WT (break)	1.05767	1
Manapal/WT (red)	0.91854	0.607