Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.3.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.89827	0.08
27DAP/17DAP	1.4217	0.618
39DAP/27DAP	1.70326	0.672
41DAP/39DAP	1.07157	0.815
42DAP/41DAP	1.40114	0.556
43DAP/42DAP	1.33452	1
47DAP/43DAP	2.0433	0.201
52DAP/47DAP	1.18204	0.763
57DAP/52DAP	1.12278	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89521	0.317
17DAP/reference	0.96	0.63
27DAP/reference	1.01449	0.996
39DAP/reference	1.33215	0.277
41DAP/reference	0.71814	0.267
42DAP/reference	1.02472	0.755
43DAP/reference	0.34906	0.049
47DAP/reference	0.86557	0.098
52DAP/reference	1.00549	0.791
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.79647	0.076
27DAP/17DAP	0.96935	0.854
39DAP/27DAP	1.54609	0.194
41DAP/39DAP	0.61465	0.013
42DAP/41DAP	1.08782	0.8
43DAP/42DAP	0.84432	0.044
47DAP/43DAP	0.98544	0.93
52DAP/47DAP	1.27947	0.31
57DAP/52DAP	1.14698	0.279
57DAP/7DAP	1.18267

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19127	0.138
17DAP/reference	1.18563	0.297
27DAP/reference	1.08264	0.197
39DAP/reference	1.53195	0.007
41DAP/reference	1.53791	0.02
42DAP/reference	1.53891	0.046
43DAP/reference	1.6032	0.018
47DAP/reference	1.11048	0.791
52DAP/reference	1.34742	0.076
57DAP/reference	1.18495	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00807	0.97
17DAP/reference	1.10658	0.518
27DAP/reference	1.07569	0.573
39DAP/reference	0.94139	0.298
41DAP/reference	1.05599	0.96
42DAP/reference	0.9653	0.355
43DAP/reference	1.06515	0.719
47DAP/reference	0.9831	0.5
52DAP/reference	1.325	0.208
57DAP/reference	0.83079	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95557	0.455
17DAP/reference	1.05576	0.988
27DAP/reference	1.11735	0.164
39DAP/reference	1.21871	0.038
41DAP/reference	1.22267	0.096
42DAP/reference	1.16232	0.214
43DAP/reference	1.20039	0.439
47DAP/reference	0.9528	0.396
52DAP/reference	1.23666	0.463
57DAP/reference	1.02167	0.909

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0638	1
26DAP/20DAP	0.55182	0.244
34DAP/26DAP	1.51163	0.154
51DAP/34DAP	1.27342	0.597
52DAP/51DAP	0.6294	0.151
53DAP/52DAP	1.25768	0.517
55DAP/53DAP	0.62502	0.03
57DAP/55DAP	1.1162	0.559
62DAP/57DAP	0.9036	0.994
68DAP/62DAP	0.95427	0.81
68DAP/14DAP	0.80015	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54385	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.05487	1
Mature Green Tomato/Ripe Tomato	0.70426	0.079
Immature Eggplant/Mature Eggplant	5.42927	0.043
Ripe Pepper/Ripe Tomato	0.15975	0.224
Mature Eggplant/Ripe Tomato	0.94769	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	3.78137	0.574
1-1-2/M82	1.14575	1
12-2/M82	1.00738	1
12-4/M82	1.65791	1
1-3/M82	2.88699	0.26
2-1-1/M82	0.72469	0.784
2-1/M82	1.97529
2-6/M82	0.63335	1
3-2/M82	0.76019
4-1-1/M82	0.89691	1
4-1/M82	0.82967
4-3-2/M82	0.68265	0.487
4-3/M82	1.91687	1
5-3/M82	1.28453	1
6-2/M82	0.82007
6-3/M82	0.94581	1
7-1/M82	1.4017	0.741
7-2/M82	1.41923	1
9-3-2/M82	1.02543	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	1.40411
IL12-4/WTpooled	0.73398
IL1-4/WTpooled	0.96396	1
WT/WTpooled	0.97833

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	1.22176	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0711	0.774
DC3000/delta hrp 6h	0.76809	0.783
DC3000/delta hrp 12h	0.95613	1
DC3000/delta hrp 24h	0.83656	0.145

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	0.81021	0.265
Exp 36h	1.17413	1
Exp 60h	1.5364	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03935	1
Var 0h	2.63357	0.936
Var 12h I row2-row1	1.03638	0.692
Var 12h NI row2-row1	0.96228	0.82
Var 36h I row2-row1	0.92165	0.805
Var 36h NI row2-row1	0.92144	0.706
Var 60h I row2-row1	1.09594	1
Var 60h NI row2-row1	1.0048	1
Time course 0hI-0hNI	0.96328	0.795
Time course 12hI-12hNI	1.02444	0.82
Time course 36hI-36hNI	0.93376	0.269
Time course 60hI-60hNI	1.06529	1

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)	0.91864	0.428
transgenic ySAMdc/azygous control (breaker)	0.84148	0.173
transgenic ySAMdc/azygous control (red)	1.19775	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.40473	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.57302	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16653	0.307
Manapal/WT (break)	0.98032	1
Manapal/WT (red)	1.10693	1