Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10699	0.812
27DAP/17DAP	1.02413	0.92
39DAP/27DAP	0.89262	0.414
41DAP/39DAP	1.08337	0.982
42DAP/41DAP	1.06731	0.978
43DAP/42DAP	0.97062	0.909
47DAP/43DAP	0.95952	0.84
52DAP/47DAP	0.89834	0.695
57DAP/52DAP	1.01685	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02306	0.71
17DAP/reference	1.01551	0.787
27DAP/reference	1.01594	0.831
39DAP/reference	0.9694	0.624
41DAP/reference	1.0036	1
42DAP/reference	0.96275	0.115
43DAP/reference	1.02439	0.758
47DAP/reference	1.00273	1
52DAP/reference	0.91495	0.177
57DAP/reference	1.1317	0.061

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.131	0.208
27DAP/17DAP	0.97488	0.919
39DAP/27DAP	1.06888	0.526
41DAP/39DAP	1.03525	0.735
42DAP/41DAP	1.15613	0.155
43DAP/42DAP	1.18966	0.056
47DAP/43DAP	0.93175	0.395
52DAP/47DAP	0.99596	0.975
57DAP/52DAP	0.95173	0.494
57DAP/7DAP	0.98053	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33313	0.061
17DAP/reference	1.19061	0.014
27DAP/reference	1.27358	0.017
39DAP/reference	1.41275	0.021
41DAP/reference	0.89282	0.122
42DAP/reference	0.87624	0.106
43DAP/reference	1.26262	0.018
47DAP/reference	1.25733	0.285
52DAP/reference	1.27802	0.121
57DAP/reference	1.3088	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96948	0.623
17DAP/reference	0.99435	0.747
27DAP/reference	0.99267	0.663
39DAP/reference	0.98925	0.526
41DAP/reference	1.0686	0.536
42DAP/reference	1.00112	1
43DAP/reference	0.9173	0.32
47DAP/reference	0.98095	0.359
52DAP/reference	0.95169	0.066
57DAP/reference	0.98508	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.79046	0.017
17DAP/reference	1.27002	0.209
27DAP/reference	1.80164	0.02
39DAP/reference	1.75669	0.018
41DAP/reference	1.49935	0.009
42DAP/reference	1.84329	0.025
43DAP/reference	1.79166	0.028
47DAP/reference	1.09748	0.501
52DAP/reference	1.85199	0.05
57DAP/reference	1.39791	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02384	0.966
26DAP/20DAP	0.89258	0.512
34DAP/26DAP	1.10891	0.819
51DAP/34DAP	0.87641	0.097
52DAP/51DAP	1.12188	0.396
53DAP/52DAP	1.00553	0.961
55DAP/53DAP	1.05886	0.656
57DAP/55DAP	1.03882	0.87
62DAP/57DAP	0.96969	0.994
68DAP/62DAP	1.10003	0.792
68DAP/14DAP	0.97578	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09977	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12316	0.666
Mature Green Tomato/Ripe Tomato	0.82433	0.317
Immature Eggplant/Mature Eggplant	1.04985	0.278
Ripe Pepper/Ripe Tomato	1.25688	1
Mature Eggplant/Ripe Tomato	2.24873	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89755	0.934
1-1-2/M82	0.95042	1
12-2/M82	0.76577
12-4/M82	0.90535	0.619
1-3/M82	1.14341	0.479
2-1-1/M82	1.01188	1
2-1/M82	1.01002	1
2-6/M82	1.1047	0.695
3-2/M82	0.91495
4-1-1/M82	1.21079
4-1/M82	1.0446
4-3-2/M82	1.08378	1
4-3/M82	1.03268	1
5-3/M82	1.19562	0.572
6-2/M82	N/A	N/A
6-3/M82	0.9247	1
7-1/M82	1.08524	1
7-2/M82	1.13876	0.291
9-3-2/M82	0.94941	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84326	0.321
IL2-6/WTpooled	0.99805	1
IL7-5/WTpooled	0.8091	1
IL7-3/WTpooled	0.93066	1
IL12-4/WTpooled	0.96342	1
IL1-4/WTpooled	1.07259	1
WT/WTpooled	0.98517	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	0.99835	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03728	0.921
DC3000/delta hrp 6h	0.98125	0.95
DC3000/delta hrp 12h	1.00171	1
DC3000/delta hrp 24h	1.02799	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97869	1
DC3000 delta B/DC3000 delta AB	0.95445	0.589

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87202	1
Exp 36h	1.30234	0.489
Exp 60h	1.12838	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98755	1
Var 0h	0.92018	0.782
Var 12h I row2-row1	0.8675	0.338
Var 12h NI row2-row1	0.92121	0.713
Var 36h I row2-row1	1.11078	0.742
Var 36h NI row2-row1	1.11859	0.482
Var 60h I row2-row1	1.10313	0.562
Var 60h NI row2-row1	1.05137	1
Time course 0hI-0hNI	0.98105	0.943
Time course 12hI-12hNI	0.96943	0.705
Time course 36hI-36hNI	0.87309	0.035
Time course 60hI-60hNI	0.27741	0.005

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)	0.95543	0.614
transgenic ySAMdc/azygous control (breaker)	1.06317	1
transgenic ySAMdc/azygous control (red)	1.06374	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01628	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00436	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75315	0.172
Manapal/WT (break)	0.84459	0.333
Manapal/WT (red)	1.26854	0.164