Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25807	0.602
27DAP/17DAP	1.16301	0.822
39DAP/27DAP	1.15838	0.643
41DAP/39DAP	0.97591	0.819
42DAP/41DAP	0.89208	1
43DAP/42DAP	0.97196	0.91
47DAP/43DAP	0.84674	0.51
52DAP/47DAP	1.7426	0.156
57DAP/52DAP	1.00509	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08579	0.303
17DAP/reference	1.03904	0.306
27DAP/reference	1.01001	0.88
39DAP/reference	1.02402	0.664
41DAP/reference	1.0696	0.027
42DAP/reference	0.97111	0.045
43DAP/reference	1.00679	0.982
47DAP/reference	0.92266	0.014
52DAP/reference	0.91601	0.135
57DAP/reference	0.87642	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20072	0.1
27DAP/17DAP	1.0089	0.973
39DAP/27DAP	0.94601	0.692
41DAP/39DAP	1.00519	1
42DAP/41DAP	1.07396	0.719
43DAP/42DAP	0.79755	0.132
47DAP/43DAP	1.00554	1
52DAP/47DAP	1.00766	0.991
57DAP/52DAP	0.95776	0.646
57DAP/7DAP	1.03784	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95707	0.246
17DAP/reference	0.95857	0.094
27DAP/reference	1.00909	0.664
39DAP/reference	1.00107	1
41DAP/reference	0.93644	0.023
42DAP/reference	0.96738	0.073
43DAP/reference	0.95183	0.018
47DAP/reference	0.95817	0.222
52DAP/reference	0.98653	0.304
57DAP/reference	0.98713	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00362	1
17DAP/reference	1.08086	0.176
27DAP/reference	1.0033	0.79
39DAP/reference	1.02958	0.746
41DAP/reference	0.9275	0.133
42DAP/reference	0.92696	0.042
43DAP/reference	1.05437	0.435
47DAP/reference	0.98187	0.368
52DAP/reference	1.05565	0.135
57DAP/reference	1.05306	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05312	0.237
17DAP/reference	1.13714	0.105
27DAP/reference	1.11224	0.056
39DAP/reference	1.0672	0.067
41DAP/reference	1.0548	0.383
42DAP/reference	0.98128	0.816
43DAP/reference	0.94488	0.384
47DAP/reference	1.01394	0.966
52DAP/reference	0.96936	0.551
57DAP/reference	1.089	0.157

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94848	1
26DAP/20DAP	0.96504	1
34DAP/26DAP	1.04493	0.819
51DAP/34DAP	1.02107	0.883
52DAP/51DAP	1.1319	0.253
53DAP/52DAP	1.16436	0.356
55DAP/53DAP	1.127	0.19
57DAP/55DAP	0.96098	0.825
62DAP/57DAP	1.07534	0.515
68DAP/62DAP	1.0291	1
68DAP/14DAP	1.1046	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99766	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.28158	0.058
Mature Green Tomato/Ripe Tomato	1.67148	0.086
Immature Eggplant/Mature Eggplant	0.40479	0.062
Ripe Pepper/Ripe Tomato	1.21352	0.258
Mature Eggplant/Ripe Tomato	2.85531

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10203	0.877
1-1-2/M82	0.95925	0.958
12-2/M82	1.06846	0.61
12-4/M82	0.95279	1
1-3/M82	0.90056	0.501
2-1-1/M82	1.04694	1
2-1/M82	N/A	N/A
2-6/M82	0.97684	1
3-2/M82	0.98049	1
4-1-1/M82	1.01396	1
4-1/M82	0.85371	1
4-3-2/M82	0.95745	1
4-3/M82	0.90018	0.72
5-3/M82	1.01318	1
6-2/M82	0.97187	0.497
6-3/M82	0.9831	1
7-1/M82	1.01685	1
7-2/M82	1.07037	1
9-3-2/M82	0.82551	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9757
IL2-6/WTpooled	1.02902	0.531
IL7-5/WTpooled	1.13907
IL7-3/WTpooled	0.94103	1
IL12-4/WTpooled	0.98142	1
IL1-4/WTpooled	1.06232	1
WT/WTpooled	0.99782	1

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	0.90314	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9586	1
DC3000/delta hrp 6h	1.01167	1
DC3000/delta hrp 12h	0.96481	1
DC3000/delta hrp 24h	0.81449	0.155

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.41337	0.023
DC3000 delta B/DC3000 delta AB	0.51733	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86936	1
Exp 36h	0.81924	0.406
Exp 60h	0.77624	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97255	1
Var 0h	0.62808	1
Var 12h I row2-row1	0.8048	0.338
Var 12h NI row2-row1	0.95688	0.546
Var 36h I row2-row1	0.86841	0.805
Var 36h NI row2-row1	1.26904	0.482
Var 60h I row2-row1	1.70925	0.562
Var 60h NI row2-row1	1.07848	0.904
Time course 0hI-0hNI	0.97666	0.886
Time course 12hI-12hNI	0.99717	1
Time course 36hI-36hNI	0.97346	0.45
Time course 60hI-60hNI	0.2605	0.006

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)	1.25173	0.372
transgenic ySAMdc/azygous control (breaker)	1.8667	0.178
transgenic ySAMdc/azygous control (red)	0.8556	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9909	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.76145	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.16068	0.083
Manapal/WT (break)	2.79285	0.123
Manapal/WT (red)	1.48814	0.142