Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.19.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.85173	0.244
27DAP/17DAP	1.14331	0.88
39DAP/27DAP	2.77618	0.02
41DAP/39DAP	1.664	0.392
42DAP/41DAP	1.77059	0.071
43DAP/42DAP	1.29304	0.937
47DAP/43DAP	1.23716	0.576
52DAP/47DAP	0.56382	0.089
57DAP/52DAP	1.01246	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66105	0.044
17DAP/reference	0.52007	0.007
27DAP/reference	1.49893	0.065
39DAP/reference	1.22096	0.722
41DAP/reference	2.32537	0.054
42DAP/reference	2.33579
43DAP/reference	2.04312
47DAP/reference	0.89406	0.392
52DAP/reference	2.82998	0.121
57DAP/reference	0.3911

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7124	0.072
27DAP/17DAP	1.08819	0.909
39DAP/27DAP	1.83586	0.071
41DAP/39DAP	0.71958	0.043
42DAP/41DAP	1.17981	0.389
43DAP/42DAP	1.57851	0.021
47DAP/43DAP	1.15635	1
52DAP/47DAP	0.9754	0.907
57DAP/52DAP	0.54826	0.052
57DAP/7DAP	1.19412	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59398	0.066
17DAP/reference	0.63239	0.011
27DAP/reference	0.81726	0.062
39DAP/reference	1.20618	0.166
41DAP/reference	0.96792	0.512
42DAP/reference	1.23691	0.174
43DAP/reference	1.4396	0.012
47DAP/reference	2.08194	0.023
52DAP/reference	1.52074	0.038
57DAP/reference	1.14263	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73381	0.164
17DAP/reference	0.8583	0.159
27DAP/reference	0.84954	0.292
39DAP/reference	1.05255	1
41DAP/reference	1.17647	0.536
42DAP/reference	1.09451	0.664
43DAP/reference	1.01002	0.721
47DAP/reference	1.31443	0.098
52DAP/reference	1.00127	0.619
57DAP/reference	1.24662	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79302	0.059
17DAP/reference	0.73529	0.135
27DAP/reference	0.78772	0.065
39DAP/reference	0.88113	0.122
41DAP/reference	1.12809	0.411
42DAP/reference	1.58478	0.018
43DAP/reference	1.58533	0.034
47DAP/reference	1.44485	0.007
52DAP/reference	1.31477	0.15
57DAP/reference	2.05228	0.106

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.42152
26DAP/20DAP	0.74075	0.317
34DAP/26DAP	1.14798	1
51DAP/34DAP	0.74425	0.504
52DAP/51DAP	1.40876	0.534
53DAP/52DAP	1.21455	0.819
55DAP/53DAP	1.12492	1
57DAP/55DAP	1.09511	0.71
62DAP/57DAP	0.97692	0.871
68DAP/62DAP	1.426	0.29
68DAP/14DAP	1.42041	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.72	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	0.43466	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.19066	0.224
Mature Eggplant/Ripe Tomato	0.03294	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12817	0.877
1-1-2/M82	1.08792	1
12-2/M82	1.15261	0.421
12-4/M82	1.33104	1
1-3/M82	1.4803	0.26
2-1-1/M82	1.1169	0.366
2-1/M82	0.99747	1
2-6/M82	1.16362	0.594
3-2/M82	1.22735	0.717
4-1-1/M82	1.30878	1
4-1/M82	1.02379
4-3-2/M82	1.35256	0.284
4-3/M82	1.44256	0.268
5-3/M82	1.01508	1
6-2/M82	1.24309	1
6-3/M82	1.02933	1
7-1/M82	1.05356	1
7-2/M82	0.92472	1
9-3-2/M82	1.58322	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.99905
IL7-5/WTpooled	0.89625
IL7-3/WTpooled	0.89463	0.418
IL12-4/WTpooled	0.89994	0.581
IL1-4/WTpooled	0.94609	0.699
WT/WTpooled	1.03814	0.87

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	1.42019	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05002	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.7862
DC3000/delta hrp 24h	1.00509	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.11368

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	1.02486	1
Var 0h	0.85893	1
Var 12h I row2-row1	0.99006	1
Var 12h NI row2-row1	0.64876	0.906
Var 36h I row2-row1	1.17441	0.41
Var 36h NI row2-row1	1.04089	1
Var 60h I row2-row1	1.08997	1
Var 60h NI row2-row1	0.60946	0.359
Time course 0hI-0hNI	1.10696	0.833
Time course 12hI-12hNI	1.1422	0.403
Time course 36hI-36hNI	1.69397	0.017
Time course 60hI-60hNI	5.24538	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)	1.33099	1
transgenic ySAMdc/azygous control (red)	0.96984	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90197	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.69713	1

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)	0.73387	0.181