Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.12.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.969	0.77
27DAP/17DAP	0.95703	0.922
39DAP/27DAP	1.57719	0.588
41DAP/39DAP	0.66716	0.119
42DAP/41DAP	1.3212	0.691
43DAP/42DAP	0.94202	0.815
47DAP/43DAP	0.95623	0.835
52DAP/47DAP	1.07374	0.851
57DAP/52DAP	1.16431	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20098	0.047
17DAP/reference	0.97012	0.448
27DAP/reference	1.00549	0.996
39DAP/reference	1.02985	0.545
41DAP/reference	0.9833	0.667
42DAP/reference	1.15701	0.002
43DAP/reference	1.04615	0.445
47DAP/reference	1.07248	0.062
52DAP/reference	1.15462	0.092
57DAP/reference	1.06815	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09302	0.319
27DAP/17DAP	1.00858	0.973
39DAP/27DAP	0.96617	0.673
41DAP/39DAP	1.11234	0.781
42DAP/41DAP	1.01485	1
43DAP/42DAP	0.88397	0.038
47DAP/43DAP	1.02762	0.88
52DAP/47DAP	0.97974	0.901
57DAP/52DAP	1.00106	1
57DAP/7DAP	0.95628	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09135	0.257
17DAP/reference	1.12908	0.064
27DAP/reference	1.13696	0.018
39DAP/reference	1.14017	0.008
41DAP/reference	1.12849	0.018
42DAP/reference	1.20568	0.011
43DAP/reference	1.09091	0.105
47DAP/reference	1.23489	0.028
52DAP/reference	1.21348	0.036
57DAP/reference	1.189	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01357	0.926
17DAP/reference	1.0542	0.508
27DAP/reference	1.34523	0.039
39DAP/reference	1.50673	0.029
41DAP/reference	1.56454	0.031
42DAP/reference	1.25717	0.094
43DAP/reference	1.073	0.785
47DAP/reference	1.12378	0.12
52DAP/reference	1.19367	0.014
57DAP/reference	1.01301	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06755	0.218
17DAP/reference	1.03371	0.712
27DAP/reference	1.12391	0.046
39DAP/reference	1.17496	0.011
41DAP/reference	1.11507	0.047
42DAP/reference	1.16404	0.15
43DAP/reference	1.25109	0.154
47DAP/reference	1.19962	0.239
52DAP/reference	1.13987	0.144
57DAP/reference	2.00176	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94915	1
26DAP/20DAP	1.26053	0.235
34DAP/26DAP	0.95184	0.857
51DAP/34DAP	0.98427	0.863
52DAP/51DAP	1.05012	0.556
53DAP/52DAP	1.06266	0.712
55DAP/53DAP	1.11888	0.696
57DAP/55DAP	0.86762	0.403
62DAP/57DAP	1.10312	0.833
68DAP/62DAP	1.16855	0.573
68DAP/14DAP	1.50988	0.033

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17088	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.08796	0.176
Mature Green Tomato/Ripe Tomato	1.38642	0.032
Immature Eggplant/Mature Eggplant	1.0237	0.507
Ripe Pepper/Ripe Tomato	0.66492	0.293
Mature Eggplant/Ripe Tomato	0.9554	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.40532
1-1-2/M82	1.1357
12-2/M82	1.07692
12-4/M82	1.20292	0.611
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	0.65001
3-2/M82	1.02126
4-1-1/M82	N/A	N/A
4-1/M82	1.2751
4-3-2/M82	1.14519	1
4-3/M82	1.27598	1
5-3/M82	0.93018	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.95276
9-3-2/M82	1.04234	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83368	0.243
IL2-6/WTpooled	1.09225	0.788
IL7-5/WTpooled	0.74408
IL7-3/WTpooled	0.87286	0.298
IL12-4/WTpooled	0.96897	1
IL1-4/WTpooled	0.96448	0.699
WT/WTpooled	1.09108	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	1.11537	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11662	0.692
DC3000/delta hrp 6h	0.95485	0.95
DC3000/delta hrp 12h	1.27435	1
DC3000/delta hrp 24h	1.04766	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11348	0.145
DC3000 delta B/DC3000 delta AB	1.07395	0.394

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98422	1
Exp 36h	1.09387	1
Exp 60h	1.21418	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.83326	1
Var 0h	1.07859	0.936
Var 12h I row2-row1	0.93545	0.344
Var 12h NI row2-row1	1.00111	1
Var 36h I row2-row1	1.12345	0.305
Var 36h NI row2-row1	0.83312	0.432
Var 60h I row2-row1	1.04613	1
Var 60h NI row2-row1	0.90495	0.359
Time course 0hI-0hNI	0.88757	0.102
Time course 12hI-12hNI	1.08334	0.181
Time course 36hI-36hNI	1.24922	0.035
Time course 60hI-60hNI	1.43522	0.01

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)	1.00657	0.863
transgenic ySAMdc/azygous control (breaker)	1.16546	0.178
transgenic ySAMdc/azygous control (red)	1.13518	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09486	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11825	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72359	0.172
Manapal/WT (break)	0.94889	1
Manapal/WT (red)	1.14535	0.413