Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17516	0.63
27DAP/17DAP	1.12531	0.859
39DAP/27DAP	1.10128	0.922
41DAP/39DAP	1.32447	0.422
42DAP/41DAP	1.27304	0.702
43DAP/42DAP	1.21552	0.595
47DAP/43DAP	1.09951	0.609
52DAP/47DAP	0.8155	0.539
57DAP/52DAP	1.12502	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04581	0.567
17DAP/reference	0.96187	0.278
27DAP/reference	1.01644	0.709
39DAP/reference	1.01487	0.691
41DAP/reference	1.02135	0.808
42DAP/reference	1.01365	0.812
43DAP/reference	0.98991	0.745
47DAP/reference	1.01322	0.963
52DAP/reference	1.04687	0.43
57DAP/reference	0.92169	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91679	0.402
27DAP/17DAP	1.11072	0.569
39DAP/27DAP	1.1004	0.57
41DAP/39DAP	0.92106	0.63
42DAP/41DAP	1.24486	0.051
43DAP/42DAP	1.24966	0.013
47DAP/43DAP	1.03618	0.853
52DAP/47DAP	1.01176	1
57DAP/52DAP	0.84551	0.091
57DAP/7DAP	1.09235	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0314	0.793
17DAP/reference	0.93022	0.22
27DAP/reference	1.01245	0.698
39DAP/reference	1.06271	0.74
41DAP/reference	1.02075	1
42DAP/reference	0.9907	0.612
43DAP/reference	0.94814	0.385
47DAP/reference	1.01012	1
52DAP/reference	1.12036	0.459
57DAP/reference	1.22833	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96827	0.655
17DAP/reference	1.13486	0.056
27DAP/reference	0.99574	0.711
39DAP/reference	1.01983	1
41DAP/reference	0.99077	0.584
42DAP/reference	0.9542	0.169
43DAP/reference	1.0782	0.769
47DAP/reference	0.98861	0.574
52DAP/reference	1.04163	0.168
57DAP/reference	1.11249	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13905	0.063
17DAP/reference	1.00984	0.924
27DAP/reference	0.9468	0.376
39DAP/reference	1.01536	1
41DAP/reference	1.2828	0.032
42DAP/reference	1.27991	0.333
43DAP/reference	1.15422	0.275
47DAP/reference	0.99081	0.593
52DAP/reference	1.32822	0.167
57DAP/reference	0.84273	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77643	0.44
26DAP/20DAP	0.91694	1
34DAP/26DAP	1.05792	1
51DAP/34DAP	0.94336	0.703
52DAP/51DAP	1.33164	0.313
53DAP/52DAP	1.00523	1
55DAP/53DAP	1.16665	0.387
57DAP/55DAP	0.87406	0.499
62DAP/57DAP	1.052	0.833
68DAP/62DAP	0.89953	0.7
68DAP/14DAP	0.94027	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.54906	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.3583	1
Mature Green Tomato/Ripe Tomato	0.597	0.066
Immature Eggplant/Mature Eggplant	0.96388
Ripe Pepper/Ripe Tomato	1.54044	1
Mature Eggplant/Ripe Tomato	0.93856	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.92416
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	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	N/A	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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.29219	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97905	1
DC3000/delta hrp 6h	1.2289	1
DC3000/delta hrp 12h	0.9859	1
DC3000/delta hrp 24h	0.60602	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11383	0.333
DC3000 delta B/DC3000 delta AB	1.03827	0.625

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16298	1
Exp 36h	1.169	0.489
Exp 60h	1.20224	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94323	1
Var 0h	0.75515	1
Var 12h I row2-row1	1.31577	0.506
Var 12h NI row2-row1	0.85418	0.488
Var 36h I row2-row1	0.98797	1
Var 36h NI row2-row1	0.89582	0.478
Var 60h I row2-row1	1.1895	0.562
Var 60h NI row2-row1	0.94631	1
Time course 0hI-0hNI	1.06209	0.833
Time course 12hI-12hNI	1.05235	0.572
Time course 36hI-36hNI	1.04873	0.218
Time course 60hI-60hNI	1.24714	0.011

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)	1.00851	0.921
transgenic ySAMdc/azygous control (breaker)	1.0099	1
transgenic ySAMdc/azygous control (red)	1.05141	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99477	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16488	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2502	0.096
Manapal/WT (break)	1.03173	1
Manapal/WT (red)	1.43063	0.413