Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.14.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9423	0.671
27DAP/17DAP	1.16984	0.849
39DAP/27DAP	1.9352	0.132
41DAP/39DAP	1.14798	0.715
42DAP/41DAP	0.84567	0.774
43DAP/42DAP	1.28828	0.861
47DAP/43DAP	1.56866	0.201
52DAP/47DAP	1.16827	0.876
57DAP/52DAP	1.23971	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96857	0.55
17DAP/reference	1.03875	0.565
27DAP/reference	1.01272	1
39DAP/reference	1.01712	0.8
41DAP/reference	1.22384	0.018
42DAP/reference	0.95079	0.188
43DAP/reference	0.98353	0.745
47DAP/reference	0.99163	0.503
52DAP/reference	0.9324	0.23
57DAP/reference	0.9935	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02658	0.881
27DAP/17DAP	0.86153	0.614
39DAP/27DAP	1.16043	0.56
41DAP/39DAP	0.89385	0.617
42DAP/41DAP	1.12657	0.291
43DAP/42DAP	1.51456	0.015
47DAP/43DAP	1.19295	0.124
52DAP/47DAP	1.05682	0.823
57DAP/52DAP	1.33204	0.095
57DAP/7DAP	1.27369	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35695	0.166
17DAP/reference	0.88698	0.124
27DAP/reference	1.05557	0.804
39DAP/reference	0.92105	0.264
41DAP/reference	0.78851	0.166
42DAP/reference	0.87275	0.073
43DAP/reference	0.92239	0.252
47DAP/reference	0.63179	0.026
52DAP/reference	1.27506	0.038
57DAP/reference	1.30016	0.087

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1913	0.438
17DAP/reference	1.21375	0.127
27DAP/reference	1.19481	0.345
39DAP/reference	1.0428	0.682
41DAP/reference	1.15339	0.269
42DAP/reference	1.01688	1
43DAP/reference	1.2128	0.327
47DAP/reference	0.85381	0.168
52DAP/reference	1.0638	0.838
57DAP/reference	1.37035	0.07

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06929	1
17DAP/reference	1.03843	0.918
27DAP/reference	0.83389	0.046
39DAP/reference	1.09981	0.65
41DAP/reference	0.91255	0.417
42DAP/reference	0.90053	0.445
43DAP/reference	0.91248	0.416
47DAP/reference	0.88716	0.348
52DAP/reference	0.87303	0.405
57DAP/reference	1.08783	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91819	0.281
26DAP/20DAP	0.93276	1
34DAP/26DAP	1.38654	1
51DAP/34DAP	0.9556	0.747
52DAP/51DAP	2.67112	0.034
53DAP/52DAP	0.70335	0.049
55DAP/53DAP	1.38576	0.039
57DAP/55DAP	0.66709	0.068
62DAP/57DAP	1.33701	0.185
68DAP/62DAP	1.05626	0.914
68DAP/14DAP	0.74479

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86829	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.1382	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.93266	1
Mature Eggplant/Ripe Tomato	0.68353

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92782	0.944
1-1-2/M82	1.01993	1
12-2/M82	0.96059	0.955
12-4/M82	0.97088	1
1-3/M82	1.0222	1
2-1-1/M82	0.8689	0.565
2-1/M82	0.89266	1
2-6/M82	0.93129	1
3-2/M82	1.09244	0.443
4-1-1/M82	0.98477	1
4-1/M82	0.90468
4-3-2/M82	1.37986	1
4-3/M82	0.92234	0.72
5-3/M82	0.99886	1
6-2/M82	0.99182	1
6-3/M82	1.04872	1
7-1/M82	0.99423	1
7-2/M82	0.93012	0.881
9-3-2/M82	1.99812	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.43994	0.495
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.70361
IL1-4/WTpooled	1.28746	1
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	1.27084	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10347	0.914
DC3000/delta hrp 6h	0.93226	0.95
DC3000/delta hrp 12h	1.0387	1
DC3000/delta hrp 24h	1.11955	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29835	0.042
DC3000 delta B/DC3000 delta AB	1.36482	0.172

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8888	0.328
Exp 36h	N/A	N/A
Exp 60h	0.91421	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00837	1
Var 0h	2.08735	0.936
Var 12h I row2-row1	0.73178	0.514
Var 12h NI row2-row1	1.09385	1
Var 36h I row2-row1	0.93774	1
Var 36h NI row2-row1	1.16973	1
Var 60h I row2-row1	1.00927	1
Var 60h NI row2-row1	1.00983	1
Time course 0hI-0hNI	1.08991	0.764
Time course 12hI-12hNI	1.11413	0.367
Time course 36hI-36hNI	2.27661	0.004
Time course 60hI-60hNI	2.2281	0.008

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)	0.96957	0.529
transgenic ySAMdc/azygous control (breaker)	1.20928	0.248
transgenic ySAMdc/azygous control (red)	1.07175	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00442	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.18521	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0109	1
Manapal/WT (break)	1.10876	0.381
Manapal/WT (red)	0.96416	0.607