Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.6.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09802	0.863
27DAP/17DAP	1.0844	1
39DAP/27DAP	1.0689	0.965
41DAP/39DAP	1.00658	0.879
42DAP/41DAP	0.8802	1
43DAP/42DAP	1.22802	0.861
47DAP/43DAP	1.29532	0.527
52DAP/47DAP	1.90547	0.509
57DAP/52DAP	1.11044	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99905	0.756
17DAP/reference	0.98127	0.701
27DAP/reference	1.0106	1
39DAP/reference	1.00575	1
41DAP/reference	1.03772	0.963
42DAP/reference	1.0126	0.995
43DAP/reference	1.0825	0.34
47DAP/reference	1.08676	0.627
52DAP/reference	1.03277	0.912
57DAP/reference	0.92487	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88686	0.428
27DAP/17DAP	1.29432	0.957
39DAP/27DAP	1.18809	0.691
41DAP/39DAP	0.78542	0.057
42DAP/41DAP	1.18226	0.601
43DAP/42DAP	0.95209	0.684
47DAP/43DAP	0.86522	0.63
52DAP/47DAP	0.91522	0.801
57DAP/52DAP	0.97197	0.732
57DAP/7DAP	0.76716

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13407	0.368
17DAP/reference	0.99782	0.693
27DAP/reference	1.121	0.371
39DAP/reference	1.18245	0.12
41DAP/reference	1.38158	0.013
42DAP/reference	1.23388	0.132
43DAP/reference	0.88923	0.22
47DAP/reference	1.07458	0.525
52DAP/reference	1.37385	0.092
57DAP/reference	1.05225	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17479	0.367
17DAP/reference	1.22403	0.285
27DAP/reference	1.17152	0.068
39DAP/reference	1.10206	0.22
41DAP/reference	1.1834	0.327
42DAP/reference	1.05308	1
43DAP/reference	1.30586	0.13
47DAP/reference	0.93375	0.338
52DAP/reference	1.22442	0.021
57DAP/reference	1.32148	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15386	0.287
17DAP/reference	0.9919	0.751
27DAP/reference	1.00762	0.843
39DAP/reference	1.07831	0.773
41DAP/reference	1.05324	0.657
42DAP/reference	1.24936	0.072
43DAP/reference	1.43129	0.035
47DAP/reference	0.97645	0.494
52DAP/reference	1.20877	0.405
57DAP/reference	1.12228	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.54586	0.966
26DAP/20DAP	1.04934	0.988
34DAP/26DAP	0.87946	0.763
51DAP/34DAP	0.73168	0.268
52DAP/51DAP	0.7937	1
53DAP/52DAP	0.98464	0.897
55DAP/53DAP	1.02794	0.894
57DAP/55DAP	1.13598	0.805
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.98965
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95277	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79237
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.89082
12-2/M82	2.18727
12-4/M82	1.07868	1
1-3/M82	0.74007	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.94488	1
3-2/M82	0.83025
4-1-1/M82	0.60327
4-1/M82	1.38827	0.444
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.00243	1
6-2/M82	N/A	N/A
6-3/M82	0.96837	1
7-1/M82	0.71147
7-2/M82	0.8681	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19176	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10738
IL12-4/WTpooled	1.17681
IL1-4/WTpooled	1.59793	1
WT/WTpooled	1.05504

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	0.92161

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06209	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.87681	1
DC3000/delta hrp 24h	1.04931	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.66102
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	0.9321	0.328
Exp 36h	0.70816	0.661
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	1.02976	1
Var 0h	1.04867	1
Var 12h I row2-row1	0.99682	1
Var 12h NI row2-row1	0.95219	0.713
Var 36h I row2-row1	1.05243	1
Var 36h NI row2-row1	1.07951	1
Var 60h I row2-row1	0.98181	1
Var 60h NI row2-row1	1.08983	1
Time course 0hI-0hNI	0.79069	0.618
Time course 12hI-12hNI	0.96064	0.742
Time course 36hI-36hNI	1.16001	0.248
Time course 60hI-60hNI	2.20888	0.16

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)	1.34841	0.384
transgenic ySAMdc/azygous control (breaker)	1.03357	1
transgenic ySAMdc/azygous control (red)	1.03242	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01114	0.909

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)	0.83936	1
Manapal/WT (break)	1.01908	1
Manapal/WT (red)	0.89015	0.242