Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.1.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	32.2429	0.008
27DAP/17DAP	1.49885	0.474
39DAP/27DAP	1.19764	0.885
41DAP/39DAP	0.44378	0.041
42DAP/41DAP	0.4986	0.262
43DAP/42DAP	0.60807	0.454
47DAP/43DAP	1.1084	0.909
52DAP/47DAP	1.04415	0.851
57DAP/52DAP	1.39391	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.6354	0.041
17DAP/reference	8.64993	0.012
27DAP/reference	13.5645	0.007
39DAP/reference	6.00222	0.012
41DAP/reference	8.10813	0.007
42DAP/reference	2.48797	0.001
43DAP/reference	0.99482	0.805
47DAP/reference	1.55673	0.114
52DAP/reference	2.95726	0.011
57DAP/reference	3.10228	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	7.42704	0.037
27DAP/17DAP	1.46735	0.038
39DAP/27DAP	0.50719	0.028
41DAP/39DAP	1.21145	0.923
42DAP/41DAP	1.01375	0.726
43DAP/42DAP	0.36146	0.02
47DAP/43DAP	0.66633	0.008
52DAP/47DAP	1.83407	0.054
57DAP/52DAP	0.91146	0.56
57DAP/7DAP	1.15042	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15587	0.98
17DAP/reference	6.41951	0.006
27DAP/reference	4.96999	0.006
39DAP/reference	4.44681	0.005
41DAP/reference	2.6846	0.008
42DAP/reference	1.8599	0.037
43DAP/reference	0.48967	0.013
47DAP/reference	1.24049	0.182
52DAP/reference	0.60726	0.01
57DAP/reference	0.66184	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.48068	0.035
17DAP/reference	9.56136	0.007
27DAP/reference	6.73156	0.012
39DAP/reference	6.1415	0.011
41DAP/reference	2.57887	0.005
42DAP/reference	3.00223	0.016
43DAP/reference	3.87378	0.009
47DAP/reference	3.46278	0.008
52DAP/reference	5.77719	0.006
57DAP/reference	1.97941	0.075

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.48367	0.055
17DAP/reference	1.69945	0.111
27DAP/reference	4.46981	0.011
39DAP/reference	2.59195	0.004
41DAP/reference	1.48266	0.014
42DAP/reference	1.07187	0.877
43DAP/reference	0.72274	0.116
47DAP/reference	0.44101	0.005
52DAP/reference	0.49821	0.047
57DAP/reference	2.15066	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95831	1
26DAP/20DAP	0.7812	0.512
34DAP/26DAP	1.34274	0.542
51DAP/34DAP	1.16724	0.613
52DAP/51DAP	0.71289	0.151
53DAP/52DAP	3.76998	0.021
55DAP/53DAP	1.06048	0.755
57DAP/55DAP	0.81853	0.282
62DAP/57DAP	0.62093	0.016
68DAP/62DAP	0.89621	0.722
68DAP/14DAP	1.39346	0.131

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.50329	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9009	N/A
Mature Green Tomato/Ripe Tomato	5.64004	0.015
Immature Eggplant/Mature Eggplant	46.9776	0.05
Ripe Pepper/Ripe Tomato	0.14765	0.224
Mature Eggplant/Ripe Tomato	0.22342	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.73667	0.634
1-1-2/M82	1.05444	1
12-2/M82	1.35835	1
12-4/M82	0.99568	1
1-3/M82	1.93471	1
2-1-1/M82	0.94641	0.465
2-1/M82	0.87522	0.519
2-6/M82	0.82065	1
3-2/M82	1.15483	0.84
4-1-1/M82	1.56441	1
4-1/M82	1.20318	0.853
4-3-2/M82	0.60124	0.698
4-3/M82	0.82121	0.611
5-3/M82	1.04953	1
6-2/M82	0.94573	1
6-3/M82	1.15414	1
7-1/M82	1.24055	0.598
7-2/M82	0.96657	1
9-3-2/M82	0.76398	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.72218	0.277
IL2-6/WTpooled	0.59852	0.473
IL7-5/WTpooled	0.786	1
IL7-3/WTpooled	1.98232	1
IL12-4/WTpooled	0.99403	1
IL1-4/WTpooled	1.3555	0.426
WT/WTpooled	1.02202	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	1.30311	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96372	1
DC3000/delta hrp 6h	0.91684	0.95
DC3000/delta hrp 12h	1.35939	1
DC3000/delta hrp 24h	0.73479	0.04

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81015	0.025
DC3000 delta B/DC3000 delta AB	0.8501	0.075

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04089	1
Exp 36h	0.56894	0.504
Exp 60h	0.37493	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00221	1
Var 0h	0.97993	1
Var 12h I row2-row1	0.78962	0.565
Var 12h NI row2-row1	0.82814	0.82
Var 36h I row2-row1	0.97972	1
Var 36h NI row2-row1	1.71753	0.246
Var 60h I row2-row1	0.96262	0.952
Var 60h NI row2-row1	1.03905	1
Time course 0hI-0hNI	1.08126	0.764
Time course 12hI-12hNI	0.85257	0.12
Time course 36hI-36hNI	0.60451	0.024
Time course 60hI-60hNI	0.24563	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)	0.92204	0.614
transgenic ySAMdc/azygous control (breaker)	1.02973	1
transgenic ySAMdc/azygous control (red)	0.89236	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.98008	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13472	0.277

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)	0.81433	0.424