Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99964	0.839
27DAP/17DAP	1.04041	1
39DAP/27DAP	0.78099	0.435
41DAP/39DAP	1.10814	0.814
42DAP/41DAP	1.06301	0.931
43DAP/42DAP	1.13429	1
47DAP/43DAP	1.093	0.584
52DAP/47DAP	0.72271	0.391
57DAP/52DAP	1.16744	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18793	0.052
17DAP/reference	0.94641	0.419
27DAP/reference	1.02928	0.66
39DAP/reference	0.99319	0.885
41DAP/reference	0.8966	0.085
42DAP/reference	1.00329	0.707
43DAP/reference	0.996	0.882
47DAP/reference	0.93079	0.032
52DAP/reference	0.86958	0.051
57DAP/reference	1.00697	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81141	0.053
27DAP/17DAP	1.18773	0.214
39DAP/27DAP	0.97493	0.775
41DAP/39DAP	0.90784	0.63
42DAP/41DAP	1.04917	1
43DAP/42DAP	1.20062	0.086
47DAP/43DAP	1.04407	0.926
52DAP/47DAP	1.08818	0.689
57DAP/52DAP	1.05386	0.768
57DAP/7DAP	0.8945	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96447	0.326
17DAP/reference	0.94245	0.049
27DAP/reference	0.88185	0.022
39DAP/reference	0.94115	0.264
41DAP/reference	1.00367	1
42DAP/reference	0.8266	0.144
43DAP/reference	1.01334	0.83
47DAP/reference	0.9083	0.066
52DAP/reference	0.86094	0.046
57DAP/reference	0.97154	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00529	0.933
17DAP/reference	1.12746	0.25
27DAP/reference	1.04368	0.735
39DAP/reference	0.94025	0.298
41DAP/reference	0.94833	0.322
42DAP/reference	0.8784	0.039
43DAP/reference	0.95232	0.414
47DAP/reference	0.92969	0.12
52DAP/reference	0.90195	0.01
57DAP/reference	1.01913	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04634	0.456
17DAP/reference	0.98722	0.579
27DAP/reference	0.99069	0.516
39DAP/reference	0.96883	0.179
41DAP/reference	0.93629	0.032
42DAP/reference	0.90622	0.014
43DAP/reference	0.91018	0.018
47DAP/reference	0.93316	0.076
52DAP/reference	0.88272	0.296
57DAP/reference	0.95686	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05641	0.966
26DAP/20DAP	1.08691	0.62
34DAP/26DAP	1.03654	1
51DAP/34DAP	1.11165	0.154
52DAP/51DAP	0.89471	0.151
53DAP/52DAP	0.99085	0.978
55DAP/53DAP	0.98992	0.864
57DAP/55DAP	1.04655	0.935
62DAP/57DAP	1.18511	0.445
68DAP/62DAP	1.01897	1
68DAP/14DAP	1.41712	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78139	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13906	0.176
Mature Green Tomato/Ripe Tomato	1.59817	0.095
Immature Eggplant/Mature Eggplant	0.45763	0.067
Ripe Pepper/Ripe Tomato	2.30247	1
Mature Eggplant/Ripe Tomato	2.23355	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09594	0.591
1-1-2/M82	0.95822	1
12-2/M82	1.04335	1
12-4/M82	0.97634	0.619
1-3/M82	0.98085	1
2-1-1/M82	1.08154	1
2-1/M82	0.99586	1
2-6/M82	1.08872	0.505
3-2/M82	1.01559
4-1-1/M82	0.99117	1
4-1/M82	0.82487	1
4-3-2/M82	1.03939	1
4-3/M82	0.99742	1
5-3/M82	1.08764	1
6-2/M82	1.0071	1
6-3/M82	0.9933	1
7-1/M82	0.96634	0.803
7-2/M82	1.08996	1
9-3-2/M82	1.02464

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.43079
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.28413	1
WT/WTpooled	0.82214	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	0.93586	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02133	0.921
DC3000/delta hrp 6h	1.00866	1
DC3000/delta hrp 12h	0.96978	1
DC3000/delta hrp 24h	0.85751	0.306

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.55524	0.028
DC3000 delta B/DC3000 delta AB	0.61755	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9288	1
Exp 36h	0.78372	0.456
Exp 60h	0.67835	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06369	1
Var 0h	0.60786	0.933
Var 12h I row2-row1	0.79892	0.357
Var 12h NI row2-row1	0.91519	0.627
Var 36h I row2-row1	0.90529	0.805
Var 36h NI row2-row1	1.07641	0.482
Var 60h I row2-row1	0.95121	0.439
Var 60h NI row2-row1	1.07758	0.904
Time course 0hI-0hNI	1.01541	0.867
Time course 12hI-12hNI	0.98166	0.897
Time course 36hI-36hNI	0.72363	0.026
Time course 60hI-60hNI	0.34106	0.005

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)	1.04921	0.571
transgenic ySAMdc/azygous control (breaker)	0.72125	0.173
transgenic ySAMdc/azygous control (red)	1.22708	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93187	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.58548	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31872	0.105
Manapal/WT (break)	1.54883	0.381
Manapal/WT (red)	1.14161	0.413