Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.2.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66877	0.051
27DAP/17DAP	0.8343	0.63
39DAP/27DAP	1.70586	0.087
41DAP/39DAP	1.24223	0.591
42DAP/41DAP	1.10754	0.954
43DAP/42DAP	0.83454	0.773
47DAP/43DAP	0.98582	0.736
52DAP/47DAP	0.95984	0.779
57DAP/52DAP	1.13787	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16949	0.735
17DAP/reference	N/A	N/A
27DAP/reference	1.09635	0.759
39DAP/reference	1.20531	N/A
41DAP/reference	N/A	N/A
42DAP/reference	1.17689	0.517
43DAP/reference	0.57909	N/A
47DAP/reference	2.21099	0.069
52DAP/reference	0.99251	0.749
57DAP/reference	0.47235	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02799	0.947
27DAP/17DAP	1.10598	0.859
39DAP/27DAP	0.87095	0.201
41DAP/39DAP	1.15227	0.837
42DAP/41DAP	1.00425	0.894
43DAP/42DAP	0.97498	0.875
47DAP/43DAP	1.0455	0.906
52DAP/47DAP	0.96653	0.9
57DAP/52DAP	0.93052	0.612
57DAP/7DAP	0.40142	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4273	0.223
17DAP/reference	0.99943	0.693
27DAP/reference	1.09207	0.131
39DAP/reference	0.94547	0.264
41DAP/reference	0.75602	0.027
42DAP/reference	0.55796	0.012
43DAP/reference	1.21117	0.694
47DAP/reference	1.65531	0.458
52DAP/reference	1.66073	0.121
57DAP/reference	1.14119	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98564	0.786
17DAP/reference	1.21661	0.496
27DAP/reference	N/A	N/A
39DAP/reference	1.13827	N/A
41DAP/reference	2.53507	N/A
42DAP/reference	N/A	N/A
43DAP/reference	0.84347	0.292
47DAP/reference	1.11488	N/A
52DAP/reference	1.59459	0.021
57DAP/reference	2.2094	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54084	0.02
17DAP/reference	0.97567	0.696
27DAP/reference	1.07404	0.934
39DAP/reference	1.15714	0.116
41DAP/reference	1.05958	0.867
42DAP/reference	1.269	0.416
43DAP/reference	1.08927	0.572
47DAP/reference	1.81888	0.155
52DAP/reference	1.36352	0.118
57DAP/reference	1.00708	N/A

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0182	1
26DAP/20DAP	1.37632	0.228
34DAP/26DAP	0.88186	0.944
51DAP/34DAP	1.18426	N/A
52DAP/51DAP	0.98887	1
53DAP/52DAP	1.24691	0.334
55DAP/53DAP	0.75985	0.111
57DAP/55DAP	1.29878	0.265
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.91342	0.033
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22454	0.347

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	0.25609	N/A
Mature Eggplant/Ripe Tomato	0.67681	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9002	0.934
1-1-2/M82	0.89007	0.804
12-2/M82	0.91333	0.955
12-4/M82	1.27097	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	1.19981	0.695
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.7264	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.0933	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	1.08536	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25988	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89926	1
IL12-4/WTpooled	1.51086	0.737
IL1-4/WTpooled	0.95645	0.834
WT/WTpooled	1.15762	0.957

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	1.15425	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03277	0.921
DC3000/delta hrp 6h	0.65054	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.02318	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.69593	0.044
DC3000 delta B/DC3000 delta AB	1.02406	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01693	1
Exp 36h	1.54307	0.371
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	0.94052	1
Var 0h	1.40947	0.782
Var 12h I row2-row1	0.83764	0.338
Var 12h NI row2-row1	1.06924	0.649
Var 36h I row2-row1	1.17531	0.908
Var 36h NI row2-row1	0.89432	0.45
Var 60h I row2-row1	0.9769	N/A
Var 60h NI row2-row1	1.03807	1
Time course 0hI-0hNI	1.05072	0.799
Time course 12hI-12hNI	0.99958	0.994
Time course 36hI-36hNI	1.05578	0.513
Time course 60hI-60hNI	1.05686	1

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.84935	0.181