Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37994	0.381
27DAP/17DAP	1.13391	0.842
39DAP/27DAP	2.02906	0.168
41DAP/39DAP	0.9184	0.638
42DAP/41DAP	0.79555	0.774
43DAP/42DAP	1.10277	1
47DAP/43DAP	0.80784	0.424
52DAP/47DAP	1.7709	0.268
57DAP/52DAP	1.10733	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94371	0.217
17DAP/reference	0.88211	0.158
27DAP/reference	0.99559	0.847
39DAP/reference	0.90326	0.412
41DAP/reference	0.93519	0.154
42DAP/reference	1.21555	0.003
43DAP/reference	1.12442	0.025
47DAP/reference	0.96661	0.242
52DAP/reference	1.02489	1
57DAP/reference	1.02408	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98049	0.697
27DAP/17DAP	1.01087	0.96
39DAP/27DAP	1.00424	0.854
41DAP/39DAP	0.95842	0.875
42DAP/41DAP	1.11104	0.526
43DAP/42DAP	1.01342
47DAP/43DAP	1.01213	0.95
52DAP/47DAP	0.96435	0.905
57DAP/52DAP	1.00657	1
57DAP/7DAP	1.04207	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01634	0.758
17DAP/reference	0.86062	0.072
27DAP/reference	1.09536	0.453
39DAP/reference	0.83383	0.043
41DAP/reference	0.96679	0.412
42DAP/reference	1.09393	0.534
43DAP/reference	0.76266	0.018
47DAP/reference	1.32578	0.48
52DAP/reference	0.76714	0.015
57DAP/reference	0.62603	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99089	0.848
17DAP/reference	0.90822	0.143
27DAP/reference	1.23864	0.118
39DAP/reference	0.91076	0.067
41DAP/reference	1.06432	0.599
42DAP/reference	1.0951	0.433
43DAP/reference	1.10439	1
47DAP/reference	0.95508	0.092
52DAP/reference	0.75656	0.004
57DAP/reference	0.68098	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86093	0.068
17DAP/reference	0.83921	0.092
27DAP/reference	0.99176	0.624
39DAP/reference	0.93695	0.271
41DAP/reference	1.10944	0.134
42DAP/reference	1.26889	0.041
43DAP/reference	1.13171	0.935
47DAP/reference	0.87744	0.12
52DAP/reference	0.93512	0.433
57DAP/reference	0.95788	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94325	1
26DAP/20DAP	1.07963	0.663
34DAP/26DAP	0.9517	0.584
51DAP/34DAP	1.16653	0.064
52DAP/51DAP	0.97538	1
53DAP/52DAP	1.06814	0.797
55DAP/53DAP	0.89023	0.037
57DAP/55DAP	0.98769	0.925
62DAP/57DAP	0.8536	0.681
68DAP/62DAP	1.13495	0.565
68DAP/14DAP	1.24351	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.85089	0.03

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.59647	0.131
Mature Green Tomato/Ripe Tomato	0.69409	0.165
Immature Eggplant/Mature Eggplant	1.92326	0.05
Ripe Pepper/Ripe Tomato	0.80292	0.293
Mature Eggplant/Ripe Tomato	0.42988	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95474	0.944
1-1-2/M82	1.0969
12-2/M82	0.99359	1
12-4/M82	0.97288	0.619
1-3/M82	1.06142	1
2-1-1/M82	0.86432	0.565
2-1/M82	0.94664	1
2-6/M82	0.90956	1
3-2/M82	0.95979	0.414
4-1-1/M82	0.98659	1
4-1/M82	0.92094	1
4-3-2/M82	1.02201	1
4-3/M82	0.93204	0.72
5-3/M82	0.94685	0.642
6-2/M82	1.00438	1
6-3/M82	0.97895	1
7-1/M82	1.03704	1
7-2/M82	0.97401	0.881
9-3-2/M82	1.29236	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11822	0.365
IL2-6/WTpooled	1.1347	0.419
IL7-5/WTpooled	0.58897	1
IL7-3/WTpooled	0.96294	1
IL12-4/WTpooled	1.02262	0.737
IL1-4/WTpooled	1.1165	1
WT/WTpooled	1.02658	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	1.46659	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03218	0.875
DC3000/delta hrp 6h	0.94132	0.95
DC3000/delta hrp 12h	1.00065	1
DC3000/delta hrp 24h	1.05089	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0398	0.29
DC3000 delta B/DC3000 delta AB	0.98881	0.936

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26264	1
Exp 36h	1.32136	1
Exp 60h	1.39594	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00856	1
Var 0h	0.51874	1
Var 12h I row2-row1	1.12496	0.283
Var 12h NI row2-row1	1.05021	1
Var 36h I row2-row1	1.14349	1
Var 36h NI row2-row1	1.03493	1
Var 60h I row2-row1	1.10706	1
Var 60h NI row2-row1	1.06959	1
Time course 0hI-0hNI	1.07269	0.719
Time course 12hI-12hNI	1.06645	0.603
Time course 36hI-36hNI	0.97271	0.418
Time course 60hI-60hNI	1.53128	0.009

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)	1.11035	0.571
transgenic ySAMdc/azygous control (breaker)	0.97631	0.49
transgenic ySAMdc/azygous control (red)	0.98017	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18579	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94408	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07452	0.307
Manapal/WT (break)	1.03932	0.381
Manapal/WT (red)	1.01142	1