Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07488	0.947
27DAP/17DAP	1.56008	0.625
39DAP/27DAP	0.94067	0.67
41DAP/39DAP	1.07955	0.887
42DAP/41DAP	1.05446	1
43DAP/42DAP	0.89882	0.787
47DAP/43DAP	0.66715	0.173
52DAP/47DAP	1.33863	0.869
57DAP/52DAP	1.40286	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87049	0.172
17DAP/reference	1.30517	0.019
27DAP/reference	1.0009	0.797
39DAP/reference	1.18012	0.129
41DAP/reference	1.25921	0.054
42DAP/reference	0.83102	0.016
43DAP/reference	0.95279	0.631
47DAP/reference	0.76386	0.015
52DAP/reference	0.75022	0.05
57DAP/reference	0.68777	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27967	0.078
27DAP/17DAP	1.01174	1
39DAP/27DAP	1.42655	0.114
41DAP/39DAP	0.91766	0.747
42DAP/41DAP	1.22446	0.852
43DAP/42DAP	2.08603	0.478
47DAP/43DAP	0.76232	0.022
52DAP/47DAP	0.84078	0.591
57DAP/52DAP	0.87409	0.564
57DAP/7DAP	0.86784	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86309	0.095
17DAP/reference	1.01764	1
27DAP/reference	0.96443	0.215
39DAP/reference	1.02618	1
41DAP/reference	1.0674	0.864
42DAP/reference	1.07141	1
43DAP/reference	1.35681	0.048
47DAP/reference	1.31569	0.901
52DAP/reference	1.17543	0.171
57DAP/reference	1.48393	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92464	0.268
17DAP/reference	1.09876	1
27DAP/reference	0.80446	0.144
39DAP/reference	0.88938
41DAP/reference	0.92374	0.331
42DAP/reference	0.94915	0.355
43DAP/reference	1.03388	1
47DAP/reference	0.99706	0.714
52DAP/reference	1.10724	0.417
57DAP/reference	1.13677	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83965	0.055
17DAP/reference	1.047	1
27DAP/reference	1.26878	0.02
39DAP/reference	1.05808	0.342
41DAP/reference	1.04868	0.777
42DAP/reference	0.83725	0.22
43DAP/reference	0.86083	0.237
47DAP/reference	0.90179	0.383
52DAP/reference	1.25768	0.801
57DAP/reference	0.79758	0.122

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17332	0.966
26DAP/20DAP	1.0547	0.953
34DAP/26DAP	0.84612	0.18
51DAP/34DAP	0.41874	0.058
52DAP/51DAP	0.77741	1
53DAP/52DAP	0.65261	0.157
55DAP/53DAP	0.92871	0.735
57DAP/55DAP	0.85979	0.486
62DAP/57DAP	0.81527	0.681
68DAP/62DAP	1.02286	0.863
68DAP/14DAP	0.40924

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.64765	0.048

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.49352	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.49819
Mature Eggplant/Ripe Tomato	2.27753	0.26

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	0.99942	1
1-3/M82	N/A	N/A
2-1-1/M82	0.92158
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
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	1.15226
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.63453
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	1.03262	1
IL2-6/WTpooled	1.17607	0.584
IL7-5/WTpooled	0.9499	1
IL7-3/WTpooled	0.98343	1
IL12-4/WTpooled	0.97609	1
IL1-4/WTpooled	0.98646	1
WT/WTpooled	0.95773	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	0.73469	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.78976	1
DC3000/delta hrp 6h	1.04356	1
DC3000/delta hrp 12h	1.19923	1
DC3000/delta hrp 24h	0.72004	0.105

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	0.93715	0.693

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.2586	0.326
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	1.04406	1
Var 0h	0.98722	1
Var 12h I row2-row1	1.35602	0.379
Var 12h NI row2-row1	1.07551	1
Var 36h I row2-row1	0.84721	1
Var 36h NI row2-row1	1.27508	0.253
Var 60h I row2-row1	1.14878	0.562
Var 60h NI row2-row1	1.07903	0.904
Time course 0hI-0hNI	1.01879	0.867
Time course 12hI-12hNI	0.92259	0.298
Time course 36hI-36hNI	0.9251	0.28
Time course 60hI-60hNI	0.47402	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)	0.72288	0.26
transgenic ySAMdc/azygous control (breaker)	0.83131	0.251
transgenic ySAMdc/azygous control (red)	1.00085	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00565	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.52837	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26456	0.096
Manapal/WT (break)	0.70257	0.333
Manapal/WT (red)	1.9684	0.15