Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79774	0.206
27DAP/17DAP	1.03778	1
39DAP/27DAP	0.81934	0.449
41DAP/39DAP	1.34291	0.326
42DAP/41DAP	1.11814	0.873
43DAP/42DAP	0.95811	0.775
47DAP/43DAP	0.91133	0.696
52DAP/47DAP	1.37519	0.424
57DAP/52DAP	1.05721	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05618	0.366
17DAP/reference	1.02587	0.248
27DAP/reference	0.9753	0.525
39DAP/reference	1.02004	0.722
41DAP/reference	0.95412	0.434
42DAP/reference	0.99593	0.547
43DAP/reference	0.9949	0.861
47DAP/reference	1.03447	0.463
52DAP/reference	1.01971	1
57DAP/reference	1.00334	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02604	0.881
27DAP/17DAP	0.95807	0.878
39DAP/27DAP	1.02819	0.707
41DAP/39DAP	1.03529	0.849
42DAP/41DAP	1.00385	1
43DAP/42DAP	1.0044	1
47DAP/43DAP	1.01212	0.951
52DAP/47DAP	1.04897	0.8
57DAP/52DAP	1.0329	0.798
57DAP/7DAP	1.04166	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01543	0.91
17DAP/reference	0.94879	0.035
27DAP/reference	0.93235	0.055
39DAP/reference	1.03819	0.133
41DAP/reference	1.00298	1
42DAP/reference	1.05704	0.233
43DAP/reference	1.00668	1
47DAP/reference	0.93017	0.222
52DAP/reference	1.03738	0.401
57DAP/reference	1.00391	0.804

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98328	0.736
17DAP/reference	1.02638	0.789
27DAP/reference	0.99578	0.686
39DAP/reference	0.93835	0.122
41DAP/reference	0.98489	0.481
42DAP/reference	0.96255	0.321
43DAP/reference	1.00484	1
47DAP/reference	0.92199	0.054
52DAP/reference	0.95284	0.131
57DAP/reference	0.98665	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98233	0.455
17DAP/reference	0.93678	0.205
27DAP/reference	1.06173	0.621
39DAP/reference	1.00487	1
41DAP/reference	0.96551	0.459
42DAP/reference	0.94242	0.032
43DAP/reference	0.99099	0.738
47DAP/reference	0.89795	0.132
52DAP/reference	0.95728	0.472
57DAP/reference	0.87114	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03617	0.966
26DAP/20DAP	1.03902	0.924
34DAP/26DAP	0.93971	0.531
51DAP/34DAP	1.00521	0.993
52DAP/51DAP	1.0129	0.86
53DAP/52DAP	1.06638	0.882
55DAP/53DAP	0.97354	0.796
57DAP/55DAP	0.91241	0.587
62DAP/57DAP	0.68321
68DAP/62DAP	1.03377	0.845
68DAP/14DAP	1.01354	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14393	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89547	0.418
Mature Green Tomato/Ripe Tomato	1.08565	0.814
Immature Eggplant/Mature Eggplant	0.87395	0.254
Ripe Pepper/Ripe Tomato	3.75098	1
Mature Eggplant/Ripe Tomato	2.07311	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.941	0.934
1-1-2/M82	1.02282	1
12-2/M82	0.97636	0.955
12-4/M82	0.99117	1
1-3/M82	0.92629	0.378
2-1-1/M82	0.93536	0.465
2-1/M82	0.87415	0.74
2-6/M82	0.98974	1
3-2/M82	N/A	N/A
4-1-1/M82	1.11571	0.977
4-1/M82	0.89301	0.737
4-3-2/M82	0.99597
4-3/M82	0.95842	1
5-3/M82	0.9826	1
6-2/M82	0.98954	1
6-3/M82	1.01878	1
7-1/M82	1.00458	1
7-2/M82	0.98634	1
9-3-2/M82	0.97314	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.87981	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96947	1
IL12-4/WTpooled	0.90196	0.71
IL1-4/WTpooled	1.04268
WT/WTpooled	1.06386	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	0.93008	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03158	0.921
DC3000/delta hrp 6h	1.2448	1
DC3000/delta hrp 12h	0.96293	1
DC3000/delta hrp 24h	1.02981	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02859	0.441
DC3000 delta B/DC3000 delta AB	0.98294	0.892

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02376	1
Exp 36h	1.20943	1
Exp 60h	0.84249	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9961	1
Var 0h	1.05618	0.936
Var 12h I row2-row1	1.07786	0.613
Var 12h NI row2-row1	1.14967	1
Var 36h I row2-row1	1.0248	1
Var 36h NI row2-row1	0.85421	0.584
Var 60h I row2-row1	1.02935	1
Var 60h NI row2-row1	1.00409	1
Time course 0hI-0hNI	0.9854	0.967
Time course 12hI-12hNI	1.02381	0.833
Time course 36hI-36hNI	0.95395	0.169
Time course 60hI-60hNI	1.05403	0.359

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)	0.89235	0.278
transgenic ySAMdc/azygous control (breaker)	1.19686	0.248
transgenic ySAMdc/azygous control (red)	1.11784	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02032	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91671	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2616	0.093
Manapal/WT (break)	1.17662	0.381
Manapal/WT (red)	1.42104	0.15