Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82884	0.339
27DAP/17DAP	2.19397	0.872
39DAP/27DAP	1.13458	0.796
41DAP/39DAP	0.77572	0.373
42DAP/41DAP	1.37371	0.458
43DAP/42DAP	0.76799	0.495
47DAP/43DAP	1.33833	0.727
52DAP/47DAP	0.79566	0.538
57DAP/52DAP	1.30013	0.521

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87741	0.159
17DAP/reference	0.71211	0.007
27DAP/reference	0.92369	0.395
39DAP/reference	0.708	0.01
41DAP/reference	0.64856	0.008
42DAP/reference	0.83794	0.01
43DAP/reference	0.9035	0.18
47DAP/reference	0.98622	0.503
52DAP/reference	1.23871	0.242
57DAP/reference	1.21576	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25029	0.077
27DAP/17DAP	0.76964	0.295
39DAP/27DAP	1.03544	0.977
41DAP/39DAP	1.13536	0.837
42DAP/41DAP	1.2582	0.74
43DAP/42DAP	1.1909	0.413
47DAP/43DAP	1.12305	0.906
52DAP/47DAP	0.98183	0.905
57DAP/52DAP	1.04654	0.921
57DAP/7DAP	0.67818

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23091	0.1
17DAP/reference	1.03584	0.896
27DAP/reference	0.92351	0.101
39DAP/reference	0.89499	0.146
41DAP/reference	0.89038	0.133
42DAP/reference	0.97687	0.506
43DAP/reference	0.95613	0.305
47DAP/reference	0.96612	0.504
52DAP/reference	0.87708	0.097
57DAP/reference	0.947	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7922	0.105
17DAP/reference	0.6794	0.004
27DAP/reference	0.93843	0.366
39DAP/reference	1.02981	1
41DAP/reference	1.04708	1
42DAP/reference	0.93904	0.212
43DAP/reference	0.64927	0.012
47DAP/reference	0.814	0.033
52DAP/reference	0.94947	0.327
57DAP/reference	0.7633	0.026

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24111	0.158
17DAP/reference	0.91328	0.328
27DAP/reference	0.97946	0.566
39DAP/reference	0.94815	0.393
41DAP/reference	0.95824	0.417
42DAP/reference	1.1106	0.566
43DAP/reference	1.07063	0.59
47DAP/reference	1.03736	0.934
52DAP/reference	0.95357	0.472
57DAP/reference	1.46662	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10486	0.966
26DAP/20DAP	1.79837	0.319
34DAP/26DAP	0.35642
51DAP/34DAP	1.70077	0.055
52DAP/51DAP	1.20247	0.848
53DAP/52DAP	1.30978	0.688
55DAP/53DAP	0.66271	0.181
57DAP/55DAP	1.33613	0.51
62DAP/57DAP	0.96972	0.994
68DAP/62DAP	1.97228	0.025
68DAP/14DAP	3.3823	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90586	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57342	0.122
Mature Green Tomato/Ripe Tomato	1.66657	0.106
Immature Eggplant/Mature Eggplant	0.29528
Ripe Pepper/Ripe Tomato	2.36727	0.258
Mature Eggplant/Ripe Tomato	0.9825	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.62024
12-2/M82	N/A	N/A
12-4/M82	0.5988	0.319
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	1.63811
4-3/M82	2.14337
5-3/M82	0.87339	1
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	0.8609

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05084	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.69606	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.98252	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	1.0574	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92153	1
DC3000/delta hrp 6h	0.95137	0.95
DC3000/delta hrp 12h	0.89548	1
DC3000/delta hrp 24h	0.67058	0.034

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	1.08454	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92313	1
Exp 36h	0.96784	0.943
Exp 60h	0.91867	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01865	1
Var 0h	N/A	N/A
Var 12h I row2-row1	2.0326	0.58
Var 12h NI row2-row1	1.06859	0.649
Var 36h I row2-row1	1.19086	0.339
Var 36h NI row2-row1	0.97055	0.791
Var 60h I row2-row1	0.81838	0.285
Var 60h NI row2-row1	1.00885	1
Time course 0hI-0hNI	0.90382	0.327
Time course 12hI-12hNI	1.00856	1
Time course 36hI-36hNI	1.06189	0.401
Time course 60hI-60hNI	0.75056	0.026

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)	1.29179	0.287
transgenic ySAMdc/azygous control (breaker)	0.86549	0.49
transgenic ySAMdc/azygous control (red)	1.03458	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98701	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.42569	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.54155	0.084
Manapal/WT (break)	1.56675	0.381
Manapal/WT (red)	N/A	N/A