Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80444	0.297
27DAP/17DAP	0.79171	0.201
39DAP/27DAP	1.20896	0.768
41DAP/39DAP	1.015	1
42DAP/41DAP	0.89543	1
43DAP/42DAP	1.05677	1
47DAP/43DAP	0.98564	0.913
52DAP/47DAP	0.99077	0.9
57DAP/52DAP	1.30356	0.93

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10435	0.567
17DAP/reference	0.93622	0.26
27DAP/reference	0.96008	0.484
39DAP/reference	0.9114	0.09
41DAP/reference	0.81005	0.01
42DAP/reference	1.08024	0.366
43DAP/reference	0.7926	0.04
47DAP/reference	1.09617	0.096
52DAP/reference	1.00119	0.598
57DAP/reference	1.14915	0.195

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12147	0.662
27DAP/17DAP	1.21509	0.653
39DAP/27DAP	0.92613	0.682
41DAP/39DAP	0.95714	0.945
42DAP/41DAP	1.05247	1
43DAP/42DAP	1.07118	0.627
47DAP/43DAP	1.02587	0.969
52DAP/47DAP	1.10373	0.742
57DAP/52DAP	0.91501	0.546
57DAP/7DAP	0.89753	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30246	0.065
17DAP/reference	1.17767	0.244
27DAP/reference	1.26351	0.026
39DAP/reference	0.9526	0.307
41DAP/reference	1.08599	1
42DAP/reference	1.26646	0.03
43DAP/reference	1.32532	0.048
47DAP/reference	1.08548	0.525
52DAP/reference	0.94467	0.332
57DAP/reference	0.90497	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45602	0.038
17DAP/reference	1.36871	0.081
27DAP/reference	1.22234	0.146
39DAP/reference	1.41619	0.106
41DAP/reference	1.36965	0.006
42DAP/reference	1.52477	0.053
43DAP/reference	1.13627	0.293
47DAP/reference	1.12867	0.069
52DAP/reference	1.35109	0.014
57DAP/reference	1.41101	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28817	0.025
17DAP/reference	1.07577	0.767
27DAP/reference	0.97208	0.594
39DAP/reference	1.10947	0.773
41DAP/reference	0.94984	0.512
42DAP/reference	1.3265	0.114
43DAP/reference	1.09688	0.572
47DAP/reference	0.96319	0.409
52DAP/reference	1.39337	0.194
57DAP/reference	1.28799	0.233

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.37854	0.966
26DAP/20DAP	0.89306	1
34DAP/26DAP	0.90329	0.816
51DAP/34DAP	2.64842	0.759
52DAP/51DAP	1.09654	0.638
53DAP/52DAP	1.21164	0.806
55DAP/53DAP	1.34942	0.781
57DAP/55DAP	0.80814	0.516
62DAP/57DAP	0.9721
68DAP/62DAP	0.89856	0.787
68DAP/14DAP	1.04146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5722	0.099

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86858	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.49414
Mature Eggplant/Ripe Tomato	0.96428

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.92725
12-2/M82	0.93215
12-4/M82	0.81217	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.15872
2-1/M82	1.2472
2-6/M82	0.93837
3-2/M82	N/A	N/A
4-1-1/M82	0.84175
4-1/M82	1.20619
4-3-2/M82	N/A	N/A
4-3/M82	1.19288
5-3/M82	0.86913	1
6-2/M82	N/A	N/A
6-3/M82	0.86401
7-1/M82	0.79582
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	0.86038
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.69049	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.94114	0.699
WT/WTpooled	N/A	N/A

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	1.03536	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99823	1
DC3000/delta hrp 6h	0.88144	0.95
DC3000/delta hrp 12h	0.72328
DC3000/delta hrp 24h	1.00142	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31921
DC3000 delta B/DC3000 delta AB	1.01747	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03698	1
Exp 36h	1.03248	1
Exp 60h	1.15535	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99182
Var 0h	1.06377
Var 12h I row2-row1	0.95717	0.77
Var 12h NI row2-row1	0.86581	0.627
Var 36h I row2-row1	0.84197	1
Var 36h NI row2-row1	3.05968	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.21314	0.904
Time course 0hI-0hNI	0.90504	0.292
Time course 12hI-12hNI	0.93603	0.65
Time course 36hI-36hNI	0.93647	0.389
Time course 60hI-60hNI	1.02235	1

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)	1.16125	0.3
transgenic ySAMdc/azygous control (breaker)	1.02324	1
transgenic ySAMdc/azygous control (red)	1.01816	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91209	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88594	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97034	1
Manapal/WT (break)	0.70673	1
Manapal/WT (red)	0.98045	0.863