Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06213	0.851
27DAP/17DAP	1.14351	0.845
39DAP/27DAP	0.95131	0.663
41DAP/39DAP	1.21744	0.63
42DAP/41DAP	1.05023	1
43DAP/42DAP	1.00618	0.937
47DAP/43DAP	1.11163	0.909
52DAP/47DAP	1.25942	0.493
57DAP/52DAP	1.06154	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9232	0.277
17DAP/reference	0.92463	0.18
27DAP/reference	0.92923	0.215
39DAP/reference	1.18537	0.386
41DAP/reference	1.00989	1
42DAP/reference	1.73752	0.001
43DAP/reference	1.59509	0.008
47DAP/reference	1.27599	0.001
52DAP/reference	0.98567	0.58
57DAP/reference	1.20023	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83269	0.201
27DAP/17DAP	1.06069	0.909
39DAP/27DAP	1.13266	0.422
41DAP/39DAP	0.90748	0.42
42DAP/41DAP	1.07367	0.508
43DAP/42DAP	1.09864	0.324
47DAP/43DAP	1.04979	0.805
52DAP/47DAP	0.99108	0.941
57DAP/52DAP	1.01892	0.917
57DAP/7DAP	1.21598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10118	0.338
17DAP/reference	1.05635	0.134
27DAP/reference	0.95	0.117
39DAP/reference	1.08107	0.114
41DAP/reference	1.01994	1
42DAP/reference	0.98575	0.531
43DAP/reference	1.00677	1
47DAP/reference	2.31395	0.054
52DAP/reference	0.96247	0.278
57DAP/reference	0.94482	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0183	0.952
17DAP/reference	1.37067	0.018
27DAP/reference	1.33416	0.043
39DAP/reference	1.04586	0.868
41DAP/reference	1.16983	0.102
42DAP/reference	1.23699	0.061
43DAP/reference	1.06592	0.939
47DAP/reference	1.2326	0.058
52DAP/reference	0.96619	0.433
57DAP/reference	0.97462	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04093	0.329
17DAP/reference	1.05344	0.675
27DAP/reference	0.96575	0.243
39DAP/reference	1.01067	0.813
41DAP/reference	1.01943	0.961
42DAP/reference	1.31492	0.307
43DAP/reference	1.78634	0.109
47DAP/reference	1.14503	0.519
52DAP/reference	1.08115	0.542
57DAP/reference	1.53313	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01264	1
26DAP/20DAP	1.01493	1
34DAP/26DAP	0.99855	1
51DAP/34DAP	0.95026	0.611
52DAP/51DAP	1.03328	0.86
53DAP/52DAP	1.1296	0.413
55DAP/53DAP	1.03014	0.927
57DAP/55DAP	1.06614	0.87
62DAP/57DAP	1.29466	0.133
68DAP/62DAP	1.18238	0.808
68DAP/14DAP	1.20073	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29119	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.35116	0.058
Mature Green Tomato/Ripe Tomato	0.83165	0.347
Immature Eggplant/Mature Eggplant	0.69173	0.067
Ripe Pepper/Ripe Tomato	0.58955	0.293
Mature Eggplant/Ripe Tomato	1.75559	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92256	0.651
1-1-2/M82	0.96611	1
12-2/M82	1.13643	1
12-4/M82	0.98034	1
1-3/M82	0.93294	0.441
2-1-1/M82	1.19678	0.439
2-1/M82	N/A	N/A
2-6/M82	1.00032	1
3-2/M82	0.94671	1
4-1-1/M82	0.92631	1
4-1/M82	0.75616	0.737
4-3-2/M82	1.00681	1
4-3/M82	0.91017	1
5-3/M82	0.99155	1
6-2/M82	0.85508	0.497
6-3/M82	0.93288	0.857
7-1/M82	N/A	N/A
7-2/M82	1.13107	1
9-3-2/M82	0.90167	1

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	0.72435
IL1-4/WTpooled	N/A	N/A
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	1.19023	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9866	1
DC3000/delta hrp 6h	0.94184	0.95
DC3000/delta hrp 12h	1.08643	1
DC3000/delta hrp 24h	1.03246	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13526	0.063
DC3000 delta B/DC3000 delta AB	1.08629	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85854	1
Exp 36h	2.61829	0.693
Exp 60h	1.15148	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02324	1
Var 0h	0.97531	0.933
Var 12h I row2-row1	1.25761	0.406
Var 12h NI row2-row1	0.91218	0.713
Var 36h I row2-row1	0.85817	0.805
Var 36h NI row2-row1	1.01435	1
Var 60h I row2-row1	1.03889	1
Var 60h NI row2-row1	1.1167	0.904
Time course 0hI-0hNI	1.12342	0.323
Time course 12hI-12hNI	0.98807	0.95
Time course 36hI-36hNI	1.10283	0.007
Time course 60hI-60hNI	1.82669	0.008

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)	1.28767	0.272
transgenic ySAMdc/azygous control (breaker)	0.6509	0.173
transgenic ySAMdc/azygous control (red)	0.8995	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00026	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.62591	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.55304	0.172
Manapal/WT (break)	0.85399	0.333
Manapal/WT (red)	0.80633	0.199