Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.15.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.18913	0.014
27DAP/17DAP	0.75318	0.438
39DAP/27DAP	0.81959	0.487
41DAP/39DAP	1.28439	0.357
42DAP/41DAP	1.33306	0.926
43DAP/42DAP	0.97808	0.925
47DAP/43DAP	1.14035	1
52DAP/47DAP	1.17714	0.809
57DAP/52DAP	0.92005	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17624	0.057
17DAP/reference	0.88531	0.111
27DAP/reference	0.90954	0.041
39DAP/reference	0.96904	0.475
41DAP/reference	0.94095	0.114
42DAP/reference	0.92247	0.015
43DAP/reference	0.94689	0.107
47DAP/reference	0.87172	0.003
52DAP/reference	0.84066	0.033
57DAP/reference	0.80184	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.35715	0.033
27DAP/17DAP	1.00188	1
39DAP/27DAP	0.97553	0.812
41DAP/39DAP	1.07886	0.887
42DAP/41DAP	1.04623	0.836
43DAP/42DAP	0.97483	0.709
47DAP/43DAP	0.9876	0.933
52DAP/47DAP	1.01371	0.965
57DAP/52DAP	0.99116	0.818
57DAP/7DAP	0.79545	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87945	0.095
17DAP/reference	0.90168	0.011
27DAP/reference	0.89855	0.031
39DAP/reference	1.00785	0.96
41DAP/reference	0.90122	0.284
42DAP/reference	0.98217	0.458
43DAP/reference	0.8978	0.192
47DAP/reference	0.58232	0.066
52DAP/reference	0.93718	0.278
57DAP/reference	0.96115	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35544	0.424
17DAP/reference	0.76584	0.01
27DAP/reference	0.72138	0.027
39DAP/reference	0.67468	0.008
41DAP/reference	0.73954	0.016
42DAP/reference	0.93038	0.189
43DAP/reference	0.76427	0.029
47DAP/reference	0.97037	0.379
52DAP/reference	0.74462	0.013
57DAP/reference	0.69062	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23597	0.069
17DAP/reference	0.81486	0.105
27DAP/reference	0.84683	0.043
39DAP/reference	0.84459	0.133
41DAP/reference	0.81277	0.132
42DAP/reference	0.80775	0.028
43DAP/reference	0.81805	0.046
47DAP/reference	0.68567	0.005
52DAP/reference	0.7661	0.155
57DAP/reference	0.60513	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98997	1
26DAP/20DAP	0.91842	1
34DAP/26DAP	0.88259	0.237
51DAP/34DAP	0.90584	0.174
52DAP/51DAP	1.0401	0.542
53DAP/52DAP	1.06636	0.868
55DAP/53DAP	0.98146	0.807
57DAP/55DAP	0.90892	0.647
62DAP/57DAP	1.03272	1
68DAP/62DAP	1.16572	0.821
68DAP/14DAP	0.77591	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02245	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.1807	0.066
Mature Green Tomato/Ripe Tomato	1.4404	0.363
Immature Eggplant/Mature Eggplant	1.4264	0.058
Ripe Pepper/Ripe Tomato	2.40214	1
Mature Eggplant/Ripe Tomato	1.79489	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95328	0.934
1-1-2/M82	0.92194	1
12-2/M82	0.98091	1
12-4/M82	0.85222	1
1-3/M82	0.92828	0.501
2-1-1/M82	1.04308	1
2-1/M82	1.21308	1
2-6/M82	0.9832	1
3-2/M82	0.98066
4-1-1/M82	1.03227	1
4-1/M82	0.9996
4-3-2/M82	N/A	N/A
4-3/M82	1.05584	1
5-3/M82	0.9859	1
6-2/M82	0.97199	1
6-3/M82	0.96719	0.715
7-1/M82	1.08486	0.598
7-2/M82	1.02713	1
9-3-2/M82	0.76574

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82533	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.12196
IL1-4/WTpooled	0.87618
WT/WTpooled	N/A	N/A

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	1.24492	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98067	1
DC3000/delta hrp 6h	0.69722	0.637
DC3000/delta hrp 12h	1.04528	1
DC3000/delta hrp 24h	1.05493	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1665	0.121
DC3000 delta B/DC3000 delta AB	1.02887	0.636

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98002	1
Exp 36h	0.81302	0.456
Exp 60h	0.93254	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9866	1
Var 0h	1.00658	1
Var 12h I row2-row1	1.2046	0.196
Var 12h NI row2-row1	0.98251	1
Var 36h I row2-row1	0.9707	1
Var 36h NI row2-row1	0.9313	0.549
Var 60h I row2-row1	1.28863	0.562
Var 60h NI row2-row1	1.2395	0.904
Time course 0hI-0hNI	1.02528	1
Time course 12hI-12hNI	1.02968	0.803
Time course 36hI-36hNI	0.88176	0.132
Time course 60hI-60hNI	1.1094	0.115

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)	0.9094	0.377
transgenic ySAMdc/azygous control (breaker)	1.33763	0.166
transgenic ySAMdc/azygous control (red)	1.10794	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00422	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15262	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79668	1
Manapal/WT (break)	0.83872	1
Manapal/WT (red)	0.62397	0.187