Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68298	0.134
27DAP/17DAP	1.0878	0.88
39DAP/27DAP	1.32291	0.527
41DAP/39DAP	0.98285	0.772
42DAP/41DAP	0.72134	0.774
43DAP/42DAP	0.88607	0.695
47DAP/43DAP	0.96263	0.768
52DAP/47DAP	0.76046	0.436
57DAP/52DAP	0.89252	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88106	0.121
17DAP/reference	0.70232	0.008
27DAP/reference	0.89785	0.223
39DAP/reference	0.85417	0.178
41DAP/reference	0.64617	0.01
42DAP/reference	0.86891	0.016
43DAP/reference	0.80527	0.027
47DAP/reference	0.98059	0.445
52DAP/reference	1.0439	1
57DAP/reference	1.37973	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86444	0.277
27DAP/17DAP	1.02935	0.988
39DAP/27DAP	0.87071	0.394
41DAP/39DAP	1.11677	0.876
42DAP/41DAP	0.96856	0.737
43DAP/42DAP	1.1688	0.627
47DAP/43DAP	0.81371	0.128
52DAP/47DAP	1.05015	0.965
57DAP/52DAP	1.64389	0.05
57DAP/7DAP	1.19372	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84229	0.168
17DAP/reference	1.07201	0.754
27DAP/reference	0.77322	0.055
39DAP/reference	0.60886	0.011
41DAP/reference	0.66149	0.022
42DAP/reference	0.63772	0.01
43DAP/reference	0.79348	0.072
47DAP/reference	0.95091	0.504
52DAP/reference	0.68931	0.016
57DAP/reference	0.83501	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90926	0.318
17DAP/reference	0.75464	0.012
27DAP/reference	0.90811	0.155
39DAP/reference	0.95486	0.392
41DAP/reference	1.02075	1
42DAP/reference	0.82656	0.028
43DAP/reference	0.85566	0.196
47DAP/reference	0.82544	0.016
52DAP/reference	0.95857	0.38
57DAP/reference	0.81626	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9449	0.455
17DAP/reference	1.00172	0.886
27DAP/reference	0.84176	0.113
39DAP/reference	1.02738	0.752
41DAP/reference	0.87328	0.331
42DAP/reference	0.95504	0.552
43DAP/reference	0.9261	0.256
47DAP/reference	0.81948	0.031
52DAP/reference	1.15519	0.801
57DAP/reference	0.95178	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39292	0.966
26DAP/20DAP	1.74011	0.099
34DAP/26DAP	1.19786	1
51DAP/34DAP	0.77161	0.217
52DAP/51DAP	1.20243	0.335
53DAP/52DAP	0.52398	0.116
55DAP/53DAP	1.11259	1
57DAP/55DAP	1.36612	0.348
62DAP/57DAP	1.07927	0.902
68DAP/62DAP	1.57365	0.132
68DAP/14DAP	1.72888	0.189

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36905	0.113

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.89706	0.03
Immature Eggplant/Mature Eggplant	1.48901	1
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.95148
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.84014
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.88313
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86903
7-2/M82	1.29084
9-3-2/M82	1.11038

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09034	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85368	0.418
IL12-4/WTpooled	1.00031	1
IL1-4/WTpooled	0.9161	0.699
WT/WTpooled	1.07285	0.72

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	1.0161	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94235	0.941
DC3000/delta hrp 6h	1.00804	0.95
DC3000/delta hrp 12h	0.91885	1
DC3000/delta hrp 24h	1.45156	0.045

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95915	0.803
DC3000 delta B/DC3000 delta AB	0.77063	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.61719	0.328
Exp 36h	0.72192	0.661
Exp 60h	0.64438	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98326	1
Var 0h	1.03786	0.98
Var 12h I row2-row1	1.24154	0.544
Var 12h NI row2-row1	0.95176	0.82
Var 36h I row2-row1	1.18666	0.908
Var 36h NI row2-row1	1.34834	1
Var 60h I row2-row1	0.66122	0.832
Var 60h NI row2-row1	0.97543	1
Time course 0hI-0hNI	1.02676	0.867
Time course 12hI-12hNI	0.85821	0.191
Time course 36hI-36hNI	0.61185	0.023
Time course 60hI-60hNI	0.35824	0.006

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)	0.88361	0.213
transgenic ySAMdc/azygous control (breaker)	0.95748	1
transgenic ySAMdc/azygous control (red)	0.90755	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83324	0.099

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05376	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00735	1
Manapal/WT (break)	0.97127	1
Manapal/WT (red)	1.07762	0.413