Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01262	0.951
27DAP/17DAP	1.05297	0.996
39DAP/27DAP	1.02613	1
41DAP/39DAP	1.50655	0.252
42DAP/41DAP	1.79106	0.685
43DAP/42DAP	0.76197	0.699
47DAP/43DAP	1.21167	0.68
52DAP/47DAP	1.65367	0.76
57DAP/52DAP	0.60576	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04398	0.71
17DAP/reference	0.9215	0.278
27DAP/reference	1.0142	0.923
39DAP/reference	0.95508	0.611
41DAP/reference	0.83016	0.085
42DAP/reference	0.95665	0.176
43DAP/reference	1.07611	0.569
47DAP/reference	0.84173	0.191
52DAP/reference	1.0617	0.302
57DAP/reference	0.98525	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98114	0.782
27DAP/17DAP	0.96763	0.782
39DAP/27DAP	0.97021	0.804
41DAP/39DAP	0.91797	0.804
42DAP/41DAP	1.12749	0.425
43DAP/42DAP	1.07629	0.627
47DAP/43DAP	1.01807	0.951
52DAP/47DAP	1.04982	0.844
57DAP/52DAP	0.8209	0.289
57DAP/7DAP	0.94109	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86118	0.157
17DAP/reference	0.97145	0.447
27DAP/reference	1.11049	0.453
39DAP/reference	1.17319	0.126
41DAP/reference	0.94575	0.375
42DAP/reference	0.97712	0.436
43DAP/reference	1.27132	0.026
47DAP/reference	1.25736	0.266
52DAP/reference	1.2463	0.121
57DAP/reference	0.94243	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08663	0.787
17DAP/reference	0.99674	0.747
27DAP/reference	1.03803	0.988
39DAP/reference	0.87969	0.221
41DAP/reference	1.04592	0.981
42DAP/reference	1.16207	0.351
43DAP/reference	1.09115	1
47DAP/reference	1.09863	0.426
52DAP/reference	0.97098	0.469
57DAP/reference	0.87039	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05045	0.758
17DAP/reference	0.93124	0.452
27DAP/reference	1.04823	0.621
39DAP/reference	1.02619	0.889
41DAP/reference	0.98065	0.682
42DAP/reference	1.23047	0.18
43DAP/reference	1.17837	0.362
47DAP/reference	1.03074	1
52DAP/reference	2.00237	0.167
57DAP/reference	0.99242	0.704

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40982	0.817
26DAP/20DAP	1.02767	1
34DAP/26DAP	1.09208	0.819
51DAP/34DAP	1.17592	0.883
52DAP/51DAP	0.94488	1
53DAP/52DAP	0.92498	0.703
55DAP/53DAP	0.98473	0.852
57DAP/55DAP	1.20591	0.543
62DAP/57DAP	2.27041	0.047
68DAP/62DAP	0.80061	0.722
68DAP/14DAP	1.28261	0.131

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89677	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.31474	0.073
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.57313	0.05
Ripe Pepper/Ripe Tomato	7.34329	0.258
Mature Eggplant/Ripe Tomato	1.02069	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.77401	0.512
1-1-2/M82	1.33719	1
12-2/M82	0.9447	0.955
12-4/M82	0.8349
1-3/M82	N/A	N/A
2-1-1/M82	1.01333
2-1/M82	0.73403
2-6/M82	1.03082	1
3-2/M82	0.99281
4-1-1/M82	0.91913	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.4417	1
5-3/M82	1.20162	1
6-2/M82	1.47387
6-3/M82	0.66003
7-1/M82	0.92659
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00513	1
IL2-6/WTpooled	0.91528	1
IL7-5/WTpooled	0.46567	1
IL7-3/WTpooled	0.87176	0.418
IL12-4/WTpooled	0.93248	1
IL1-4/WTpooled	1.01703	1
WT/WTpooled	0.96731	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	0.75801	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88338	1
DC3000/delta hrp 6h	0.9974	0.95
DC3000/delta hrp 12h	1.19391	1
DC3000/delta hrp 24h	1.09626	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22021	0.333
DC3000 delta B/DC3000 delta AB	0.99605	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.39784	1
Exp 36h	0.89754	0.539
Exp 60h	1.44992	0.18

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99124	1
Var 0h	1.13452	0.936
Var 12h I row2-row1	0.79205	0.357
Var 12h NI row2-row1	1.07638	1
Var 36h I row2-row1	1.08651	1
Var 36h NI row2-row1	1.16573	0.482
Var 60h I row2-row1	1.0144	1
Var 60h NI row2-row1	1.04387	1
Time course 0hI-0hNI	0.95746	0.754
Time course 12hI-12hNI	0.91923	0.377
Time course 36hI-36hNI	0.7766	0.067
Time course 60hI-60hNI	0.37993	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)	0.86163	0.286
transgenic ySAMdc/azygous control (breaker)	1.08873	1
transgenic ySAMdc/azygous control (red)	0.96193	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16366	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.37182	0.105
Manapal/WT (break)	1.18773	0.183
Manapal/WT (red)	1.3012	0.15