Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.8.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97403	0.788
27DAP/17DAP	1.09117	0.881
39DAP/27DAP	0.78925	0.507
41DAP/39DAP	1.38214	0.624
42DAP/41DAP	0.94725	1
43DAP/42DAP	0.9814	0.931
47DAP/43DAP	0.97613	0.804
52DAP/47DAP	1.00376	0.946
57DAP/52DAP	0.97594	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94228	0.188
17DAP/reference	1.05757	0.048
27DAP/reference	1.01751	0.794
39DAP/reference	1.01675	0.27
41DAP/reference	1.06521	0.421
42DAP/reference	0.98773	0.413
43DAP/reference	1.05826	0.118
47DAP/reference	0.97172	0.224
52DAP/reference	0.83971	0.089
57DAP/reference	0.80792	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9216	0.35
27DAP/17DAP	0.94289	0.748
39DAP/27DAP	1.12602	0.359
41DAP/39DAP	1.09023	0.565
42DAP/41DAP	1.16004	0.365
43DAP/42DAP	1.05813	0.513
47DAP/43DAP	1.00723	0.973
52DAP/47DAP	0.96982	0.913
57DAP/52DAP	0.9051	0.299
57DAP/7DAP	1.25323	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8703	0.08
17DAP/reference	0.81005	0.014
27DAP/reference	0.79119	0.01
39DAP/reference	0.84013	0.011
41DAP/reference	0.88688	0.013
42DAP/reference	0.78583	0.024
43DAP/reference	0.70594	0.015
47DAP/reference	0.8441	0.05
52DAP/reference	0.7623	0.012
57DAP/reference	0.78314	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12802	0.127
17DAP/reference	1.12007	0.223
27DAP/reference	1.00384	0.765
39DAP/reference	0.947	0.14
41DAP/reference	0.92854	0.256
42DAP/reference	0.92951	0.237
43DAP/reference	1.11292	0.211
47DAP/reference	0.94685	0.085
52DAP/reference	1.067	0.223
57DAP/reference	1.2054	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87864	0.127
17DAP/reference	0.96391	0.592
27DAP/reference	0.78959	0.031
39DAP/reference	0.77326	0.014
41DAP/reference	0.84508	0.055
42DAP/reference	0.67207	0.017
43DAP/reference	0.73522	0.034
47DAP/reference	0.94706	0.421
52DAP/reference	0.78734	0.167
57DAP/reference	0.60588	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03615	0.966
26DAP/20DAP	1.00483	1
34DAP/26DAP	0.99084	1
51DAP/34DAP	1.03101	0.909
52DAP/51DAP	0.85152	1
53DAP/52DAP	1.34107	0.044
55DAP/53DAP	0.85989	0.188
57DAP/55DAP	1.19778	0.666
62DAP/57DAP	0.95245	0.466
68DAP/62DAP	1.12661	0.754
68DAP/14DAP	0.90524	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.46952	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89509	0.418
Mature Green Tomato/Ripe Tomato	1.20003	0.881
Immature Eggplant/Mature Eggplant	1.1574	0.215
Ripe Pepper/Ripe Tomato	0.7849	0.293
Mature Eggplant/Ripe Tomato	0.6343	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98802	0.961
1-1-2/M82	0.99563	1
12-2/M82	1.09168
12-4/M82	0.90859	1
1-3/M82	0.82707	0.501
2-1-1/M82	0.90182
2-1/M82	N/A	N/A
2-6/M82	1.12501	1
3-2/M82	1.00692
4-1-1/M82	1.23022
4-1/M82	0.99891	1
4-3-2/M82	1.05362	1
4-3/M82	0.88059	0.72
5-3/M82	1.01162	1
6-2/M82	0.89824
6-3/M82	N/A	N/A
7-1/M82	0.94996
7-2/M82	0.98799	0.881
9-3-2/M82	0.94296	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20133	0.365
IL2-6/WTpooled	1.10824	0.46
IL7-5/WTpooled	0.78299	1
IL7-3/WTpooled	1.0197	1
IL12-4/WTpooled	0.97685	1
IL1-4/WTpooled	1.00479	1
WT/WTpooled	0.8493	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	1.0328	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06524	0.724
DC3000/delta hrp 6h	0.86554	0.95
DC3000/delta hrp 12h	1.1423	1
DC3000/delta hrp 24h	1.07362	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17303
DC3000 delta B/DC3000 delta AB	1.04128	0.516

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0632	1
Exp 36h	1.15417	0.693
Exp 60h	1.3294	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99858	1
Var 0h	0.86921	0.933
Var 12h I row2-row1	1.28821	0.58
Var 12h NI row2-row1	1.02365	1
Var 36h I row2-row1	0.90921	1
Var 36h NI row2-row1	0.93655	0.522
Var 60h I row2-row1	0.93491	0.832
Var 60h NI row2-row1	0.90475	0.818
Time course 0hI-0hNI	0.97555	0.821
Time course 12hI-12hNI	0.99794	1
Time course 36hI-36hNI	1.04972	0.513
Time course 60hI-60hNI	1.06431	0.187

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)	0.96566	0.3
transgenic ySAMdc/azygous control (breaker)	0.83012	0.131
transgenic ySAMdc/azygous control (red)	0.8737	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99944	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85428	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93524	1
Manapal/WT (break)	0.92947	0.333
Manapal/WT (red)	0.91943	0.503