Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.9.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98245	0.743
27DAP/17DAP	0.996	0.918
39DAP/27DAP	1.03627	0.82
41DAP/39DAP	1.41984	0.342
42DAP/41DAP	2.15075	0.536
43DAP/42DAP	0.90965	0.854
47DAP/43DAP	0.73614	0.286
52DAP/47DAP	2.0767	0.12
57DAP/52DAP	0.71945	0.756

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96639	0.442
17DAP/reference	1.13249	0.013
27DAP/reference	0.9624	0.428
39DAP/reference	1.06384	0.132
41DAP/reference	1.00681	1
42DAP/reference	0.8791	0.045
43DAP/reference	1.03476	0.617
47DAP/reference	0.82617	0.006
52DAP/reference	0.72028	0.065
57DAP/reference	0.77937	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96505	0.595
27DAP/17DAP	0.99589	0.969
39DAP/27DAP	1.02496	0.758
41DAP/39DAP	1.00051	0.986
42DAP/41DAP	0.98793	0.809
43DAP/42DAP	1.00795	1
47DAP/43DAP	1.01814	0.934
52DAP/47DAP	1.27947	0.351
57DAP/52DAP	1.02035	1
57DAP/7DAP	1.03216	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75338	0.062
17DAP/reference	0.79962	0.024
27DAP/reference	0.84242	0.037
39DAP/reference	0.76494	0.011
41DAP/reference	0.69466	0.02
42DAP/reference	0.65025	0.01
43DAP/reference	0.70741	0.011
47DAP/reference	0.76148	0.026
52DAP/reference	0.71158	0.013
57DAP/reference	0.77175	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06379	0.3
17DAP/reference	0.92477	0.357
27DAP/reference	0.73473	0.069
39DAP/reference	0.847	0.126
41DAP/reference	0.78722	0.076
42DAP/reference	0.7155	0.016
43DAP/reference	1.08772	0.575
47DAP/reference	0.80285	0.017
52DAP/reference	1.02728	0.838
57DAP/reference	1.23759	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85045	0.071
17DAP/reference	0.90136	0.381
27DAP/reference	0.87008	0.034
39DAP/reference	0.8219	0.015
41DAP/reference	0.81562	0.058
42DAP/reference	0.71446	0.036
43DAP/reference	0.70446	0.061
47DAP/reference	0.88718	0.286
52DAP/reference	0.82045	0.144
57DAP/reference	0.48709	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01803	0.966
26DAP/20DAP	0.8717	0.512
34DAP/26DAP	1.10747	1
51DAP/34DAP	0.99724	0.937
52DAP/51DAP	0.95758	1
53DAP/52DAP	1.15825	0.697
55DAP/53DAP	1.11307	0.399
57DAP/55DAP	1.11608	0.376
62DAP/57DAP	1.25571	0.158
68DAP/62DAP	0.96659	0.787
68DAP/14DAP	0.87147	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8051	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.85145
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.15094	0.293
Mature Eggplant/Ripe Tomato	0.89698	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91976	0.883
1-1-2/M82	0.83744
12-2/M82	N/A	N/A
12-4/M82	1.18474	1
1-3/M82	0.47569
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.0086	1
3-2/M82	1.00857	0.967
4-1-1/M82	0.85943	1
4-1/M82	0.96727
4-3-2/M82	1.09534
4-3/M82	0.80305
5-3/M82	0.90529	1
6-2/M82	N/A	N/A
6-3/M82	1.29996
7-1/M82	N/A	N/A
7-2/M82	1.06937	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81956	0.243
IL2-6/WTpooled	0.82166	0.473
IL7-5/WTpooled	0.70698	1
IL7-3/WTpooled	1.01688	1
IL12-4/WTpooled	1.01109	0.839
IL1-4/WTpooled	1.0255	1
WT/WTpooled	0.98636	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	0.98518	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9894	1
DC3000/delta hrp 6h	0.86886	0.95
DC3000/delta hrp 12h	1.18932	1
DC3000/delta hrp 24h	1.17469	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94488	0.882
DC3000 delta B/DC3000 delta AB	0.90455	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.71855	0.328
Exp 36h	1.69749	0.489
Exp 60h	1.37542	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98793	1
Var 0h	0.67034	0.933
Var 12h I row2-row1	1.08211	0.692
Var 12h NI row2-row1	0.94971	0.82
Var 36h I row2-row1	0.95452	1
Var 36h NI row2-row1	0.86604	0.645
Var 60h I row2-row1	1.28032	1
Var 60h NI row2-row1	1.10203	0.904
Time course 0hI-0hNI	1.0351	0.867
Time course 12hI-12hNI	1.0382	0.774
Time course 36hI-36hNI	1.00331	0.708
Time course 60hI-60hNI	1.30274	0.009

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)	1.05403	0.699
transgenic ySAMdc/azygous control (breaker)	0.78879	0.251
transgenic ySAMdc/azygous control (red)	0.79425	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98803	0.295

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97199	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32271	0.14
Manapal/WT (break)	0.95996	1
Manapal/WT (red)	1.15659	1