Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96198	0.722
27DAP/17DAP	2.0911	0.688
39DAP/27DAP	1.00733	1
41DAP/39DAP	0.95812	0.772
42DAP/41DAP	0.75188	0.774
43DAP/42DAP	1.28659	0.835
47DAP/43DAP	1.3828	0.809
52DAP/47DAP	0.91724	0.736
57DAP/52DAP	1.37882	0.787

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81072	0.024
17DAP/reference	0.77672	0.013
27DAP/reference	0.91687	0.286
39DAP/reference	0.88854	0.159
41DAP/reference	0.72267	0.021
42DAP/reference	1.02791	0.963
43DAP/reference	0.88813	0.222
47DAP/reference	1.03261	0.963
52DAP/reference	1.40556	0.096
57DAP/reference	1.38431	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74261	0.454
27DAP/17DAP	1.36432
39DAP/27DAP	0.98234	0.881
41DAP/39DAP	0.78591
42DAP/41DAP	1.39252
43DAP/42DAP	0.74016	0.415
47DAP/43DAP	0.68777	0.75
52DAP/47DAP	1.09643	0.979
57DAP/52DAP	3.39119
57DAP/7DAP	0.97637

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95117	0.326
17DAP/reference	1.06904	0.822
27DAP/reference	1.12052	0.107
39DAP/reference	1.38083	0.077
41DAP/reference	1.23199	0.057
42DAP/reference	1.25815	0.03
43DAP/reference	1.36435	0.07
47DAP/reference	1.05322	0.732
52DAP/reference	1.06632	0.886
57DAP/reference	1.18613	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95341	0.58
17DAP/reference	0.79071	0.059
27DAP/reference	0.99399	0.642
39DAP/reference	1.17671	0.588
41DAP/reference	1.00059	0.683
42DAP/reference	1.0901	0.664
43DAP/reference	0.94585	0.414
47DAP/reference	0.91902	0.099
52DAP/reference	1.00861	1
57DAP/reference	0.68995	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08418	0.311
17DAP/reference	1.1027	0.39
27DAP/reference	1.27289	0.057
39DAP/reference	1.1596	0.14
41DAP/reference	1.15005	0.343
42DAP/reference	1.11845	0.382
43DAP/reference	1.24211	0.343
47DAP/reference	1.15728	0.279
52DAP/reference	1.04476	0.79
57DAP/reference	1.81007	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0941	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.22425	1
51DAP/34DAP	1.62761	0.854
52DAP/51DAP	0.75833	1
53DAP/52DAP	0.90492	0.862
55DAP/53DAP	0.59626	0.03
57DAP/55DAP	1.16831	1
62DAP/57DAP	1.05852	0.833
68DAP/62DAP	1.64878	0.035
68DAP/14DAP	1.66791	0.023

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9074

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.87659	0.517
Mature Green Tomato/Ripe Tomato	0.98382
Immature Eggplant/Mature Eggplant	0.66469	0.07
Ripe Pepper/Ripe Tomato	0.56241	0.293
Mature Eggplant/Ripe Tomato	1.01648

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	0.75808
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	0.60583
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71388
IL2-6/WTpooled	0.81877	1
IL7-5/WTpooled	1.41998
IL7-3/WTpooled	0.96777	1
IL12-4/WTpooled	1.02902	1
IL1-4/WTpooled	0.78545	0.562
WT/WTpooled	1.03925	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05177	0.38
DC3000/delta hrp 6h	0.99055	0.95
DC3000/delta hrp 12h	0.98741	1
DC3000/delta hrp 24h	1.02947	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16859	1
Exp 36h	0.88305	0.749
Exp 60h	0.92154	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.29983
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.0343
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.02545	0.612
transgenic ySAMdc/azygous control (breaker)	1.26638	0.248
transgenic ySAMdc/azygous control (red)	1.11969	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14949	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85353	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02337	1
Manapal/WT (break)	1.25433	1
Manapal/WT (red)	0.85014	0.315