Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04553	0.838
27DAP/17DAP	1.08202	0.881
39DAP/27DAP	0.82784	0.449
41DAP/39DAP	1.60932	0.179
42DAP/41DAP	1.16094	0.916
43DAP/42DAP	0.96324	0.909
47DAP/43DAP	0.94954	0.815
52DAP/47DAP	1.89361	0.251
57DAP/52DAP	0.80983	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.052	0.303
17DAP/reference	1.0376	0.442
27DAP/reference	1.00179	0.923
39DAP/reference	1.03108	0.557
41DAP/reference	1.03462	0.808
42DAP/reference	1.01533	0.523
43DAP/reference	1.01383	0.866
47DAP/reference	0.96209	0.224
52DAP/reference	0.98564	0.53
57DAP/reference	0.86426	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98047	0.679
27DAP/17DAP	0.97641	0.854
39DAP/27DAP	1.01339	0.77
41DAP/39DAP	1.08703	0.88
42DAP/41DAP	0.99403	0.887
43DAP/42DAP	0.998	1
47DAP/43DAP	1.01469	0.934
52DAP/47DAP	0.97463	0.902
57DAP/52DAP	1.0049	1
57DAP/7DAP	0.96605	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90358	0.104
17DAP/reference	0.91498	0.124
27DAP/reference	0.86736	0.051
39DAP/reference	0.95326	0.354
41DAP/reference	0.93015	0.235
42DAP/reference	0.97728	0.482
43DAP/reference	1.13294	0.157
47DAP/reference	0.90937	0.293
52DAP/reference	0.83125	0.028
57DAP/reference	0.88624	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04682	0.276
17DAP/reference	0.98074	0.576
27DAP/reference	0.99511	0.711
39DAP/reference	0.95286	0.156
41DAP/reference	0.95375	0.156
42DAP/reference	0.92704	0.189
43DAP/reference	1.06912	0.288
47DAP/reference	0.97743	0.253
52DAP/reference	1.03824	0.24
57DAP/reference	1.07614	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95055	0.391
17DAP/reference	1.0215	0.988
27DAP/reference	1.02483	0.777
39DAP/reference	0.88436	0.046
41DAP/reference	0.9309	0.185
42DAP/reference	0.85607	0.087
43DAP/reference	0.76699	0.019
47DAP/reference	0.93313	0.191
52DAP/reference	0.87726	0.268
57DAP/reference	0.73112	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9872	1
26DAP/20DAP	0.95099	0.512
34DAP/26DAP	0.98442	0.98
51DAP/34DAP	0.9403	0.571
52DAP/51DAP	1.01539	0.758
53DAP/52DAP	1.0332	0.768
55DAP/53DAP	0.98218	0.82
57DAP/55DAP	1.16191	0.854
62DAP/57DAP	1.00717	1
68DAP/62DAP	0.90664	0.263
68DAP/14DAP	0.90488	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84658	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.3761	0.058
Mature Green Tomato/Ripe Tomato	0.90562	0.446
Immature Eggplant/Mature Eggplant	0.93069	0.651
Ripe Pepper/Ripe Tomato	0.72417
Mature Eggplant/Ripe Tomato	0.8534	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03455	1
1-1-2/M82	0.92494	1
12-2/M82	1.06355	1
12-4/M82	0.95794	1
1-3/M82	0.9779	1
2-1-1/M82	1.18273	0.457
2-1/M82	1.22711	0.335
2-6/M82	0.96336	1
3-2/M82	1.03209	0.84
4-1-1/M82	1.08933	1
4-1/M82	0.91455	1
4-3-2/M82	1.10541	1
4-3/M82	1.14659	1
5-3/M82	0.96396	0.642
6-2/M82	0.98744	1
6-3/M82	1.02503	1
7-1/M82	0.96607	1
7-2/M82	0.97027	0.881
9-3-2/M82	0.94882	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.52341	0.277
IL2-6/WTpooled	0.78194	1
IL7-5/WTpooled	0.77	1
IL7-3/WTpooled	1.60703	1
IL12-4/WTpooled	1.28737	0.595
IL1-4/WTpooled	1.41956	0.426
WT/WTpooled	0.98859	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	0.989	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93358	1
DC3000/delta hrp 6h	1.02951	1
DC3000/delta hrp 12h	1.06574	1
DC3000/delta hrp 24h	1.02353	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97255	1
DC3000 delta B/DC3000 delta AB	0.99599	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05107	1
Exp 36h	0.81871	0.699
Exp 60h	0.80677	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00147	1
Var 0h	0.91335	0.933
Var 12h I row2-row1	1.08142	0.58
Var 12h NI row2-row1	0.97921	0.906
Var 36h I row2-row1	0.92893	1
Var 36h NI row2-row1	0.9251	0.706
Var 60h I row2-row1	1.38315	1
Var 60h NI row2-row1	1.01891	1
Time course 0hI-0hNI	1.0214	1
Time course 12hI-12hNI	1.01727	0.892
Time course 36hI-36hNI	0.90648	0.175
Time course 60hI-60hNI	1.25273	0.047

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)	0.97393	0.391
transgenic ySAMdc/azygous control (breaker)	1.08265	0.248
transgenic ySAMdc/azygous control (red)	0.98345	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01639	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.42826	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08538	0.307
Manapal/WT (break)	1.03906	1
Manapal/WT (red)	0.92479	0.607