Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94316	0.689
27DAP/17DAP	1.41689	0.793
39DAP/27DAP	1.21548	0.995
41DAP/39DAP	1.03628	0.92
42DAP/41DAP	1.27434	0.599
43DAP/42DAP	1.19773	0.899
47DAP/43DAP	0.85373	0.546
52DAP/47DAP	2.29182	0.093
57DAP/52DAP	0.65769	0.527

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81743	0.067
17DAP/reference	0.92176	0.194
27DAP/reference	0.80391	0.032
39DAP/reference	0.98005	0.75
41DAP/reference	0.93066	0.542
42DAP/reference	1.26813	0.004
43DAP/reference	1.1451	0.133
47DAP/reference	1.36502	0.008
52DAP/reference	1.10055	0.407
57DAP/reference	1.1241	0.259

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92504	0.47
27DAP/17DAP	1.01969	0.969
39DAP/27DAP	0.9254	0.616
41DAP/39DAP	0.85325	0.228
42DAP/41DAP	1.08367	1
43DAP/42DAP	1.26791	0.212
47DAP/43DAP	1.1948	0.308
52DAP/47DAP	1.12197	0.66
57DAP/52DAP	1.80704	0.088
57DAP/7DAP	1.08404	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75531	0.06
17DAP/reference	0.98278	0.518
27DAP/reference	0.79105	0.01
39DAP/reference	1.54067	0.007
41DAP/reference	0.95084	0.341
42DAP/reference	1.27269	0.03
43DAP/reference	1.42294	0.011
47DAP/reference	1.30503	0.413
52DAP/reference	1.2602	0.081
57DAP/reference	1.78622	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93379	0.475
17DAP/reference	0.90991	0.164
27DAP/reference	0.89476	0.173
39DAP/reference	0.85891	0.165
41DAP/reference	0.84537	0.108
42DAP/reference	1.00289	0.723
43DAP/reference	0.83582	0.049
47DAP/reference	1.08606	0.426
52DAP/reference	0.92789	0.156
57DAP/reference	1.10178	0.387

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63938	0.026
17DAP/reference	0.83143	0.292
27DAP/reference	0.84107	0.056
39DAP/reference	0.91546	0.179
41DAP/reference	0.98084	0.618
42DAP/reference	1.16296	0.333
43DAP/reference	1.42242	0.012
47DAP/reference	1.38984	0.008
52DAP/reference	1.74139	0.033
57DAP/reference	1.83634	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.1451	0.966
26DAP/20DAP	0.90208	1
34DAP/26DAP	1.08878	1
51DAP/34DAP	1.57043	0.04
52DAP/51DAP	1.31517	0.202
53DAP/52DAP	0.84463	0.535
55DAP/53DAP	1.25386	0.848
57DAP/55DAP	0.96586	0.774
62DAP/57DAP	0.75524	0.28
68DAP/62DAP	1.29973	0.869
68DAP/14DAP	0.8652	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.31418	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.11143	0.019
Immature Eggplant/Mature Eggplant	2.11962	0.123
Ripe Pepper/Ripe Tomato	0.14615	0.224
Mature Eggplant/Ripe Tomato	0.0848	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05669
1-1-2/M82	1.05693
12-2/M82	0.61724
12-4/M82	0.93637	1
1-3/M82	1.88425	0.248
2-1-1/M82	0.88809	0.465
2-1/M82	0.80701
2-6/M82	1.12349	1
3-2/M82	0.91779
4-1-1/M82	1.32075
4-1/M82	0.68732
4-3-2/M82	1.22495
4-3/M82	1.0302	1
5-3/M82	0.69172	0.447
6-2/M82	1.7293	0.235
6-3/M82	1.00669
7-1/M82	1.39208	0.539
7-2/M82	0.85321	0.426
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.72935
IL1-4/WTpooled	0.94843
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	1.19505	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05647	0.921
DC3000/delta hrp 6h	1.12007	1
DC3000/delta hrp 12h	1.08778	1
DC3000/delta hrp 24h	0.83683	0.174

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	1.02747	1
Exp 36h	1.1817	1
Exp 60h	1.16717	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06068	1
Var 0h	0.91125
Var 12h I row2-row1	1.02353	0.296
Var 12h NI row2-row1	0.89401	0.546
Var 36h I row2-row1	0.97574	1
Var 36h NI row2-row1	2.389	1
Var 60h I row2-row1	0.98089
Var 60h NI row2-row1	0.87422	0.904
Time course 0hI-0hNI	1.03007	0.852
Time course 12hI-12hNI	1.19523	0.392
Time course 36hI-36hNI	1.17934	0.021
Time course 60hI-60hNI	1.07133	0.254

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)	1.07883	0.431
transgenic ySAMdc/azygous control (breaker)	0.56744	0.119
transgenic ySAMdc/azygous control (red)	1.07716	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00975	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85942	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72916	0.172
Manapal/WT (break)	1.16402	1
Manapal/WT (red)	1.47562	0.137