Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09999	0.827
27DAP/17DAP	0.88186	0.72
39DAP/27DAP	1.06178	1
41DAP/39DAP	0.804	0.285
42DAP/41DAP	1.06949	0.929
43DAP/42DAP	1.02595	1
47DAP/43DAP	1.19501	0.52
52DAP/47DAP	1.18831	0.605
57DAP/52DAP	0.88116	0.8

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91696	0.217
17DAP/reference	1.0436	0.717
27DAP/reference	1.22524	0.037
39DAP/reference	0.99732	0.921
41DAP/reference	0.87411	0.065
42DAP/reference	1.06167	0.137
43DAP/reference	1.13531	0.023
47DAP/reference	1.06232	0.148
52DAP/reference	0.94733	0.215
57DAP/reference	0.92427	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31538	0.058
27DAP/17DAP	0.99893	0.969
39DAP/27DAP	0.86843	0.144
41DAP/39DAP	0.80103	0.158
42DAP/41DAP	1.09261	0.487
43DAP/42DAP	0.97466	0.665
47DAP/43DAP	0.96364	0.805
52DAP/47DAP	0.97602	0.902
57DAP/52DAP	0.95647	0.657
57DAP/7DAP	0.85139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05857	0.501
17DAP/reference	1.0137	0.688
27DAP/reference	1.03273	0.453
39DAP/reference	1.05467	0.411
41DAP/reference	0.92697	0.133
42DAP/reference	1.05089	0.405
43DAP/reference	1.0193	1
47DAP/reference	1.02865	0.776
52DAP/reference	1.00864	1
57DAP/reference	1.01197	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92858	0.306
17DAP/reference	1.03128	0.892
27DAP/reference	1.15094	0.12
39DAP/reference	0.97967	0.497
41DAP/reference	1.02598	0.878
42DAP/reference	0.91429	0.089
43DAP/reference	0.89414	0.117
47DAP/reference	0.88766	0.014
52DAP/reference	0.83692	0.015
57DAP/reference	0.77994	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28064	0.025
17DAP/reference	1.12902	0.17
27DAP/reference	1.28045	0.017
39DAP/reference	1.23114	0.01
41DAP/reference	1.15403	0.052
42DAP/reference	1.4061	0.023
43DAP/reference	1.47877	0.008
47DAP/reference	1.789	0.008
52DAP/reference	1.23116	0.094
57DAP/reference	2.73083	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11352	0.966
26DAP/20DAP	0.93703	1
34DAP/26DAP	1.10322	0.819
51DAP/34DAP	0.70764	0.07
52DAP/51DAP	0.93086	1
53DAP/52DAP	1.00375	0.961
55DAP/53DAP	0.99748	0.925
57DAP/55DAP	1.0256	0.935
62DAP/57DAP	1.11204	0.01
68DAP/62DAP	0.89461	0.579
68DAP/14DAP	0.98714	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9727	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67366	0.172
Mature Green Tomato/Ripe Tomato	1.18879	0.523
Immature Eggplant/Mature Eggplant	0.59836	0.057
Ripe Pepper/Ripe Tomato	1.81767	0.256
Mature Eggplant/Ripe Tomato	1.42524	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17233	0.877
1-1-2/M82	1.22071	1
12-2/M82	0.87806	0.678
12-4/M82	1.11897	1
1-3/M82	1.45523	0.255
2-1-1/M82	0.84722	0.465
2-1/M82	0.73133	0.519
2-6/M82	0.96887	1
3-2/M82	1.00279	1
4-1-1/M82	1.25442	1
4-1/M82	1.15806	1
4-3-2/M82	1.192	0.508
4-3/M82	1.14057	1
5-3/M82	0.96001	1
6-2/M82	1.11071	0.253
6-3/M82	1.00951	1
7-1/M82	1.05801	0.87
7-2/M82	1.18201	1
9-3-2/M82	1.36142	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.41457	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.09196	0.792
IL7-3/WTpooled	1.37145	1
IL12-4/WTpooled	1.19602
IL1-4/WTpooled	1.8275	1
WT/WTpooled	1.26695	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	1.0826	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9645	0.849
DC3000/delta hrp 6h	0.92461	0.95
DC3000/delta hrp 12h	1.07439	1
DC3000/delta hrp 24h	0.94341	0.75

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80026
DC3000 delta B/DC3000 delta AB	0.75758

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16619	1
Exp 36h	0.9749	0.943
Exp 60h	0.88044	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98689	1
Var 0h	0.97094	1
Var 12h I row2-row1	0.92415	0.705
Var 12h NI row2-row1	0.96813	0.906
Var 36h I row2-row1	1.11463	0.908
Var 36h NI row2-row1	1.10852	1
Var 60h I row2-row1	0.9706	0.952
Var 60h NI row2-row1	0.91956	0.977
Time course 0hI-0hNI	0.99338	1
Time course 12hI-12hNI	0.94579	0.618
Time course 36hI-36hNI	1.04199	0.651
Time course 60hI-60hNI	0.74518	0.026

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)	1.01114	1
transgenic ySAMdc/azygous control (breaker)	1.27961	0.248
transgenic ySAMdc/azygous control (red)	2.55561	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.26905	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.43565	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.34756	0.105
Manapal/WT (break)	1.56133	0.381
Manapal/WT (red)	1.34005	0.413