Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07556	0.798
27DAP/17DAP	1.26459	0.735
39DAP/27DAP	1.24678	0.853
41DAP/39DAP	0.76915	0.303
42DAP/41DAP	0.812	0.774
43DAP/42DAP	1.0706	1
47DAP/43DAP	1.157	0.909
52DAP/47DAP	1.14295	0.806
57DAP/52DAP	1.04031	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89172	0.109
17DAP/reference	1.0942	0.092
27DAP/reference	0.96161	0.525
39DAP/reference	1.00667	0.92
41DAP/reference	1.26917	0.014
42DAP/reference	0.97088	0.295
43DAP/reference	1.0279	0.73
47DAP/reference	0.81523	0.012
52DAP/reference	0.77341	0.042
57DAP/reference	0.84118	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95206	0.613
27DAP/17DAP	0.9703	0.854
39DAP/27DAP	1.18375	0.514
41DAP/39DAP	1.16474	0.801
42DAP/41DAP	0.88893	0.335
43DAP/42DAP	1.00637	1
47DAP/43DAP	1.20398	0.65
52DAP/47DAP	1.01225	1
57DAP/52DAP	1.16424	0.638
57DAP/7DAP	1.39021	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96861	0.495
17DAP/reference	1.14231	0.244
27DAP/reference	1.06351	0.804
39DAP/reference	1.17071	0.096
41DAP/reference	1.19537	0.251
42DAP/reference	1.1905	0.534
43DAP/reference	0.94848	0.321
47DAP/reference	0.96536	0.504
52DAP/reference	1.19667	0.062
57DAP/reference	1.15811	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97671	0.706
17DAP/reference	1.10474	0.216
27DAP/reference	0.88943	0.257
39DAP/reference	0.91376	0.195
41DAP/reference	0.90397	0.156
42DAP/reference	0.96315	0.433
43DAP/reference	1.24571	0.135
47DAP/reference	1.12871	0.247
52DAP/reference	1.06266	0.667
57DAP/reference	1.68102	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86334	0.214
17DAP/reference	1.0082	0.87
27DAP/reference	1.16572	0.298
39DAP/reference	1.08512	0.596
41DAP/reference	1.00535	1
42DAP/reference	0.93219	0.445
43DAP/reference	0.89825	0.305
47DAP/reference	1.1022	0.847
52DAP/reference	0.9021	0.395
57DAP/reference	0.7726	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94308	1
26DAP/20DAP	1.16315	0.635
34DAP/26DAP	0.98724	0.98
51DAP/34DAP	1.01112	0.98
52DAP/51DAP	1.36594	0.232
53DAP/52DAP	1.00199	0.97
55DAP/53DAP	1.05576	0.885
57DAP/55DAP	0.9594	0.819
62DAP/57DAP	0.95389
68DAP/62DAP	0.98937	0.939
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8522	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.695	0.257
Mature Green Tomato/Ripe Tomato	0.33711	0.026
Immature Eggplant/Mature Eggplant	0.79089	0.063
Ripe Pepper/Ripe Tomato	0.089
Mature Eggplant/Ripe Tomato	0.65452	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19719	0.877
1-1-2/M82	0.8912
12-2/M82	N/A	N/A
12-4/M82	0.9585	1
1-3/M82	0.87968
2-1-1/M82	0.9867
2-1/M82	N/A	N/A
2-6/M82	0.93801
3-2/M82	1.21287
4-1-1/M82	N/A	N/A
4-1/M82	1.56611
4-3-2/M82	N/A	N/A
4-3/M82	1.40659	1
5-3/M82	1.03363	1
6-2/M82	1.33099
6-3/M82	0.86469
7-1/M82	1.03674
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	0.92858	0.321
IL2-6/WTpooled	1.01401	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.32782	0.362
IL12-4/WTpooled	1.00086	1
IL1-4/WTpooled	0.83085	0.834
WT/WTpooled	1.06727	0.957

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	1.27236	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11073	0.774
DC3000/delta hrp 6h	0.80015	0.95
DC3000/delta hrp 12h	1.33702	1
DC3000/delta hrp 24h	0.98834	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.33098

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0703	1
Exp 36h	1.35619	0.693
Exp 60h	1.45731	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04554	1
Var 0h	1.09096	0.98
Var 12h I row2-row1	1.37414	0.296
Var 12h NI row2-row1	0.82695	0.713
Var 36h I row2-row1	1.00036	1
Var 36h NI row2-row1	0.95546	0.791
Var 60h I row2-row1	1.09927	0.523
Var 60h NI row2-row1	1.01722	1
Time course 0hI-0hNI	1.10221	0.537
Time course 12hI-12hNI	1.3215	0.027
Time course 36hI-36hNI	1.62731	0.005
Time course 60hI-60hNI	1.52194	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)	0.94908	0.278
transgenic ySAMdc/azygous control (breaker)	0.99767	1
transgenic ySAMdc/azygous control (red)	0.99335	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04059	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05976	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82236	1
Manapal/WT (break)	0.80105	0.333
Manapal/WT (red)	0.72358	0.181