Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.17.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35586	0.477
27DAP/17DAP	1.15751	0.849
39DAP/27DAP	0.92628	0.631
41DAP/39DAP	1.11996	0.624
42DAP/41DAP	0.94774	1
43DAP/42DAP	1.09264	1
47DAP/43DAP	1.10366	0.842
52DAP/47DAP	1.0666	1
57DAP/52DAP	0.86137	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17908	0.735
17DAP/reference	1.03308	0.585
27DAP/reference	1.47466	0.065
39DAP/reference	0.91926	0.487
41DAP/reference	1.07375	0.963
42DAP/reference	0.88886	0.129
43DAP/reference	0.97796	0.728
47DAP/reference	0.93032	0.366
52DAP/reference	1.07713	0.689
57DAP/reference	1.05979	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94127	0.526
27DAP/17DAP	1.08686	0.61
39DAP/27DAP	0.99428	1
41DAP/39DAP	1.09726	0.393
42DAP/41DAP	0.93914	0.576
43DAP/42DAP	1.10553	0.324
47DAP/43DAP	0.97817	0.896
52DAP/47DAP	1.26366	0.324
57DAP/52DAP	1.66218	0.048
57DAP/7DAP	1.77472	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04023	0.927
17DAP/reference	0.90909	0.338
27DAP/reference	1.1399	0.664
39DAP/reference	0.73251	0.011
41DAP/reference	0.72748	0.039
42DAP/reference	0.71249	0.013
43DAP/reference	0.89052	0.095
47DAP/reference	0.8613	0.293
52DAP/reference	0.86607	0.053
57DAP/reference	0.90179	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85486	0.277
17DAP/reference	0.94818	0.51
27DAP/reference	0.53896	0.22
39DAP/reference	0.97949	0.586
41DAP/reference	1.02569	1
42DAP/reference	0.99239	0.655
43DAP/reference	1.0005	0.67
47DAP/reference	1.10981	0.816
52DAP/reference	1.46626	0.208
57DAP/reference	0.93643	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95442	0.489
17DAP/reference	0.91618	0.433
27DAP/reference	0.85551	0.206
39DAP/reference	1.04103	0.912
41DAP/reference	1.00148	0.754
42DAP/reference	0.90776	0.361
43DAP/reference	0.99086	0.712
47DAP/reference	0.90236	0.286
52DAP/reference	0.7987	0.163
57DAP/reference	1.09269	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10495	0.966
26DAP/20DAP	1.0074	1
34DAP/26DAP	1.1569	0.542
51DAP/34DAP	0.88261	0.458
52DAP/51DAP	1.03674	0.954
53DAP/52DAP	1.12007	0.47
55DAP/53DAP	0.9601	0.5
57DAP/55DAP	1.1209	0.71
62DAP/57DAP	1.44958	0.515
68DAP/62DAP	1.02593	0.914
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17934	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.27632	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	1.17203
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	0.64398
IL12-4/WTpooled	0.78612	0.581
IL1-4/WTpooled	0.9273	1
WT/WTpooled	1.05191	0.85

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	0.94334	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.51062
DC3000/delta hrp 24h	0.98653

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80154	0.341
DC3000 delta B/DC3000 delta AB	0.91533	0.27

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96948	1
Var 0h	1.168	0.782
Var 12h I row2-row1	0.91056	0.338
Var 12h NI row2-row1	0.9848	0.906
Var 36h I row2-row1	1.0879	0.489
Var 36h NI row2-row1	0.99534	1
Var 60h I row2-row1	1.05759	0.543
Var 60h NI row2-row1	1.18209	0.904
Time course 0hI-0hNI	0.99191	1
Time course 12hI-12hNI	0.97541	0.746
Time course 36hI-36hNI	1.0323	0.401
Time course 60hI-60hNI	0.75337	0.008

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.91006	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.43522	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.98094	0.863