Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.8.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88516	0.475
27DAP/17DAP	0.94567	0.892
39DAP/27DAP	0.93014	0.652
41DAP/39DAP	1.08872	0.978
42DAP/41DAP	0.97333	1
43DAP/42DAP	0.9228	0.851
47DAP/43DAP	1.03702	0.92
52DAP/47DAP	1.01588	0.983
57DAP/52DAP	0.97531	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81255	0.053
17DAP/reference	0.93612	0.24
27DAP/reference	0.97656	0.668
39DAP/reference	0.84682	0.021
41DAP/reference	1.05352	0.48
42DAP/reference	0.89762	0.046
43DAP/reference	0.96809	0.594
47DAP/reference	0.96798	0.366
52DAP/reference	1.05324	0.633
57DAP/reference	0.91721	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04195	0.975
27DAP/17DAP	0.98163	0.919
39DAP/27DAP	0.96965	0.747
41DAP/39DAP	0.90405	0.481
42DAP/41DAP	1.08458	0.675
43DAP/42DAP	1.20146	0.324
47DAP/43DAP	1.03483	0.939
52DAP/47DAP	0.89635	0.553
57DAP/52DAP	0.86045	0.206
57DAP/7DAP	1.01877	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89036	0.157
17DAP/reference	1.08724	0.688
27DAP/reference	1.01332	0.748
39DAP/reference	1.09178	0.669
41DAP/reference	1.07899	0.745
42DAP/reference	1.52536	0.132
43DAP/reference	1.82414	0.009
47DAP/reference	1.0395	1
52DAP/reference	1.85995	0.017
57DAP/reference	1.2865	0.053

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75975	0.009
17DAP/reference	0.77186	0.023
27DAP/reference	0.80904	0.093
39DAP/reference	0.83066	0.026
41DAP/reference	0.9598	0.348
42DAP/reference	0.91131	0.261
43DAP/reference	0.65726	0.004
47DAP/reference	0.91991	0.079
52DAP/reference	0.93235	0.017
57DAP/reference	0.67624	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80961	0.169
17DAP/reference	0.88962	0.308
27DAP/reference	1.12779	0.227
39DAP/reference	1.2723	0.245
41DAP/reference	1.01363	0.826
42DAP/reference	0.84057	0.552
43DAP/reference	0.99109	0.614
47DAP/reference	1.01336	1
52DAP/reference	0.82959	0.242
57DAP/reference	1.00009	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04589	1
26DAP/20DAP	0.9846	1
34DAP/26DAP	1.42113	0.19
51DAP/34DAP	1.23136	0.637
52DAP/51DAP	0.87424	1
53DAP/52DAP	1.07254	0.921
55DAP/53DAP	1.39649	0.295
57DAP/55DAP	0.8354	0.423
62DAP/57DAP	0.84477	0.466
68DAP/62DAP	1.5964	0.17
68DAP/14DAP	1.4088	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.60734	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.02228	0.042
Mature Green Tomato/Ripe Tomato	1.09921	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	5.98571	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11947
12-2/M82	N/A	N/A
12-4/M82	0.96564	1
1-3/M82	1.00869
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.95415
4-3/M82	N/A	N/A
5-3/M82	0.92223	0.364
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.97513	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36269	0.493
IL2-6/WTpooled	1.02154	1
IL7-5/WTpooled	0.80533	1
IL7-3/WTpooled	0.92103	1
IL12-4/WTpooled	0.79538	0.581
IL1-4/WTpooled	0.97758	1
WT/WTpooled	0.8788	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	1.26629	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08753	0.921
DC3000/delta hrp 6h	0.99378	0.95
DC3000/delta hrp 12h	1.18018	1
DC3000/delta hrp 24h	1.10804	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.06504
DC3000 delta B/DC3000 delta AB	0.85333

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18856	1
Exp 36h	1.4434	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98156	1
Var 0h	0.86671	0.933
Var 12h I row2-row1	1.0617	0.204
Var 12h NI row2-row1	0.78691	0.713
Var 36h I row2-row1	1.08737	0.742
Var 36h NI row2-row1	0.87152	0.61
Var 60h I row2-row1	1.08674	0.562
Var 60h NI row2-row1	1.03139	1
Time course 0hI-0hNI	0.99863	1
Time course 12hI-12hNI	0.98037	0.795
Time course 36hI-36hNI	1.05459	0.248
Time course 60hI-60hNI	1.10594	0.16

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)	1.05816	0.654
transgenic ySAMdc/azygous control (breaker)	1.24168	0.248
transgenic ySAMdc/azygous control (red)	0.92295	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97821	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69234	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01788	1
Manapal/WT (break)	0.99614	1
Manapal/WT (red)	1.00238	1