Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.13.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06343	0.798
27DAP/17DAP	1.1626	0.833
39DAP/27DAP	1.02317	0.876
41DAP/39DAP	1.08668	0.575
42DAP/41DAP	1.05147	0.941
43DAP/42DAP	0.90691	0.801
47DAP/43DAP	1.13783	0.455
52DAP/47DAP	1.00019	0.982
57DAP/52DAP	0.94605	0.936

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04555	0.544
17DAP/reference	0.99363	0.904
27DAP/reference	1.01689	0.759
39DAP/reference	1.04857	0.229
41DAP/reference	0.97262	0.667
42DAP/reference	1.03693	0.166
43DAP/reference	1.03742	0.252
47DAP/reference	1.08242	0.119
52DAP/reference	1.18254	0.134
57DAP/reference	1.14696	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02071	0.785
27DAP/17DAP	1.0012	1
39DAP/27DAP	0.99321	1
41DAP/39DAP	0.99316	1
42DAP/41DAP	0.97627	0.734
43DAP/42DAP	1.02744	0.446
47DAP/43DAP	0.99975	1
52DAP/47DAP	0.98674	0.925
57DAP/52DAP	1.01919	0.895
57DAP/7DAP	1.04335	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90264	0.157
17DAP/reference	0.96647	0.167
27DAP/reference	0.86291	0.01
39DAP/reference	0.96482	0.018
41DAP/reference	0.93597	0.032
42DAP/reference	0.94072	0.035
43DAP/reference	0.86812	0.015
47DAP/reference	0.92095	0.057
52DAP/reference	0.8665	0.033
57DAP/reference	0.85673	0.021

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99425	0.884
17DAP/reference	1.01487	0.806
27DAP/reference	1.00085	0.79
39DAP/reference	0.97758	0.392
41DAP/reference	0.95422	0.183
42DAP/reference	0.94423	0.108
43DAP/reference	0.99558	0.814
47DAP/reference	0.96298	0.102
52DAP/reference	0.96851	0.171
57DAP/reference	0.95574	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96437	0.455
17DAP/reference	0.95471	0.099
27DAP/reference	0.92262	0.043
39DAP/reference	0.95445	0.014
41DAP/reference	0.90561	0.027
42DAP/reference	0.8823	0.071
43DAP/reference	0.93976	0.079
47DAP/reference	0.95689	0.259
52DAP/reference	0.87421	0.242
57DAP/reference	1.0191	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01043	1
26DAP/20DAP	1.01227	1
34DAP/26DAP	1.00139	1
51DAP/34DAP	1.08238	0.352
52DAP/51DAP	1.03159	0.742
53DAP/52DAP	1.04705	0.738
55DAP/53DAP	0.9541	0.632
57DAP/55DAP	0.94425	0.859
62DAP/57DAP	0.95988	0.994
68DAP/62DAP	0.98623	0.863
68DAP/14DAP	0.98687	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04021	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78856	0.257
Mature Green Tomato/Ripe Tomato	0.9789	0.774
Immature Eggplant/Mature Eggplant	1.39447	0.053
Ripe Pepper/Ripe Tomato	0.44977	0.224
Mature Eggplant/Ripe Tomato	0.47344	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01053	1
1-1-2/M82	0.86477	1
12-2/M82	1.0242	1
12-4/M82	0.96252	1
1-3/M82	0.93361	0.501
2-1-1/M82	1.02488	1
2-1/M82	1.06178	1
2-6/M82	0.95974	1
3-2/M82	0.93756	0.752
4-1-1/M82	1.01934	1
4-1/M82	1.14195	1
4-3-2/M82	0.89966	0.487
4-3/M82	0.92371	0.72
5-3/M82	1.03889	1
6-2/M82	1.02986	1
6-3/M82	0.87174	1
7-1/M82	1.02836	1
7-2/M82	1.02135	1
9-3-2/M82	1.01021	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.87648	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0949	1
IL12-4/WTpooled	0.8864	0.484
IL1-4/WTpooled	0.88766	0.699
WT/WTpooled	1.1023	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	1.07476	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0392	0.921
DC3000/delta hrp 6h	1.03639	1
DC3000/delta hrp 12h	1.02589	1
DC3000/delta hrp 24h	0.98312	0.957

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26859	0.042
DC3000 delta B/DC3000 delta AB	1.21632	0.175

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07293	1
Exp 36h	3.05465	0.693
Exp 60h	1.45366	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97839	1
Var 0h	0.80123	0.933
Var 12h I row2-row1	1.19716	0.195
Var 12h NI row2-row1	1.00853	1
Var 36h I row2-row1	1.09079	1
Var 36h NI row2-row1	0.93482	0.645
Var 60h I row2-row1	0.98841	1
Var 60h NI row2-row1	1.01739	1
Time course 0hI-0hNI	1.04476	0.852
Time course 12hI-12hNI	1.0567	0.544
Time course 36hI-36hNI	1.14589	0.015
Time course 60hI-60hNI	1.88475	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)	0.93261	0.33
transgenic ySAMdc/azygous control (breaker)	0.89403	0.15
transgenic ySAMdc/azygous control (red)	1.06749	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11567	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.44804	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85619	1
Manapal/WT (break)	0.73127	0.333
Manapal/WT (red)	0.80299	0.187