Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.14.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85314	0.381
27DAP/17DAP	0.98669	1
39DAP/27DAP	0.93328	0.62
41DAP/39DAP	1.21503	0.859
42DAP/41DAP	1.07178	0.958
43DAP/42DAP	1.05895	0.945
47DAP/43DAP	1.63256	0.442
52DAP/47DAP	0.92337	0.752
57DAP/52DAP	1.11816	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93194	0.284
17DAP/reference	1.08946	0.306
27DAP/reference	1.00614	1
39DAP/reference	1.17057	0.075
41DAP/reference	1.05844	0.624
42DAP/reference	0.89006	0.048
43DAP/reference	1.03429	0.812
47DAP/reference	0.99887	0.636
52DAP/reference	1.03869	1
57DAP/reference	1.08352	0.094

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93902	0.578
27DAP/17DAP	0.89114	0.227
39DAP/27DAP	1.0533	0.672
41DAP/39DAP	1.1533	0.799
42DAP/41DAP	1.23576	0.487
43DAP/42DAP	1.16832	0.049
47DAP/43DAP	1.05381	0.973
52DAP/47DAP	1.00745	0.962
57DAP/52DAP	1.03755	1
57DAP/7DAP	0.96595

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82551	0.088
17DAP/reference	1.01791	0.971
27DAP/reference	1.0629	0.371
39DAP/reference	0.82778	0.049
41DAP/reference	0.98487	0.589
42DAP/reference	0.70158	0.169
43DAP/reference	0.95993	0.385
47DAP/reference	0.82159	0.101
52DAP/reference	0.86051	0.15
57DAP/reference	0.8954	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13545	0.22
17DAP/reference	1.08075	0.658
27DAP/reference	0.94256	0.381
39DAP/reference	1.30838	0.263
41DAP/reference	1.27886	0.122
42DAP/reference	1.02182	0.723
43DAP/reference	1.46464	0.035
47DAP/reference	1.05528	0.159
52DAP/reference	1.1135	0.629
57DAP/reference	1.26759	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94417	0.362
17DAP/reference	1.0421	0.657
27DAP/reference	1.08928	0.271
39DAP/reference	1.06161	0.65
41DAP/reference	1.01335	1
42DAP/reference	0.99938	1
43DAP/reference	0.83423	0.076
47DAP/reference	0.93905	0.383
52DAP/reference	0.84439	0.18
57DAP/reference	1.04869	0.786

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00259	1
26DAP/20DAP	0.9395	1
34DAP/26DAP	1.20563	1
51DAP/34DAP	1.06983	0.949
52DAP/51DAP	0.87322	1
53DAP/52DAP	1.16821	0.882
55DAP/53DAP	1.29983	0.134
57DAP/55DAP	1.02834	0.88
62DAP/57DAP	0.76726	0.871
68DAP/62DAP	0.88459	0.641
68DAP/14DAP	0.74599

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96174	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85303	0.39
Mature Green Tomato/Ripe Tomato	1.48862	0.299
Immature Eggplant/Mature Eggplant	1.08994	0.363
Ripe Pepper/Ripe Tomato	1.43288	1
Mature Eggplant/Ripe Tomato	1.32791	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05517	0.877
1-1-2/M82	1.02187
12-2/M82	N/A	N/A
12-4/M82	1.13468	1
1-3/M82	0.59053
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.83068	0.501
3-2/M82	0.89702
4-1-1/M82	0.80337
4-1/M82	1.37739
4-3-2/M82	N/A	N/A
4-3/M82	0.93947
5-3/M82	1.00294	1
6-2/M82	N/A	N/A
6-3/M82	1.043
7-1/M82	1.01674	1
7-2/M82	0.73215
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.42695	0.277
IL2-6/WTpooled	0.73851	0.348
IL7-5/WTpooled	1.07824	0.792
IL7-3/WTpooled	1.12823	1
IL12-4/WTpooled	1.07073	0.546
IL1-4/WTpooled	0.9071	0.834
WT/WTpooled	0.99542	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	0.95823	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00974	1
DC3000/delta hrp 6h	0.96755	0.95
DC3000/delta hrp 12h	0.98652	1
DC3000/delta hrp 24h	0.89362	0.447

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	1.32549	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93186	1
Exp 36h	0.88583	0.406
Exp 60h	1.02944	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.04606	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.92124
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.97695	0.706
Var 60h I row2-row1	1.0862
Var 60h NI row2-row1	1.02847	1
Time course 0hI-0hNI	1.01005	1
Time course 12hI-12hNI	1.00893
Time course 36hI-36hNI	0.94343	0.494
Time course 60hI-60hNI	0.66625	0.081

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)	0.99431	0.931
transgenic ySAMdc/azygous control (breaker)	0.79456	0.131
transgenic ySAMdc/azygous control (red)	1.04175	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98058	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8663	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94163	1
Manapal/WT (break)	0.90621	1
Manapal/WT (red)	0.95379	0.728