Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.14.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05588	0.893
27DAP/17DAP	1.03735	0.93
39DAP/27DAP	0.89321	0.507
41DAP/39DAP	1.42579	0.293
42DAP/41DAP	0.98222	1
43DAP/42DAP	1.05546	1
47DAP/43DAP	1.01832	1
52DAP/47DAP	1.6526	0.424
57DAP/52DAP	1.0163	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03143	0.76
17DAP/reference	1.04579	0.148
27DAP/reference	0.97147	0.395
39DAP/reference	1.0017	0.871
41DAP/reference	1.09345	0.038
42DAP/reference	1.00222	1
43DAP/reference	0.99769	0.904
47DAP/reference	0.99476	0.602
52DAP/reference	0.99273	0.654
57DAP/reference	0.92104	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00042	0.899
27DAP/17DAP	1.01394	0.967
39DAP/27DAP	1.04689	0.587
41DAP/39DAP	1.00549	1
42DAP/41DAP	1.07575	0.478
43DAP/42DAP	1.01968	0.699
47DAP/43DAP	1.00993	1
52DAP/47DAP	1.03699	0.835
57DAP/52DAP	0.96512	0.637
57DAP/7DAP	1.05416	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91905	0.059
17DAP/reference	0.96375	0.021
27DAP/reference	0.97252	0.231
39DAP/reference	0.99247	0.474
41DAP/reference	0.91869	0.022
42DAP/reference	0.93726	0.027
43DAP/reference	0.96046	0.305
47DAP/reference	0.94025	0.293
52DAP/reference	0.99993	1
57DAP/reference	0.89044	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05442	0.477
17DAP/reference	1.12299	0.271
27DAP/reference	0.92886	0.292
39DAP/reference	0.96737	0.416
41DAP/reference	0.85179	0.05
42DAP/reference	0.98721	0.594
43DAP/reference	0.97268	0.569
47DAP/reference	0.99071	0.574
52DAP/reference	1.1027	0.024
57DAP/reference	1.08266	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94467	0.098
17DAP/reference	1.00562	1
27DAP/reference	0.98674	0.539
39DAP/reference	0.97326	0.111
41DAP/reference	0.96997	0.512
42DAP/reference	0.92187	0.172
43DAP/reference	0.94564	0.334
47DAP/reference	0.91634	0.207
52DAP/reference	0.89651	0.22
57DAP/reference	0.72319	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07768	0.945
26DAP/20DAP	0.91773	0.512
34DAP/26DAP	1.01443	1
51DAP/34DAP	1.0596	0.692
52DAP/51DAP	1.03901	0.733
53DAP/52DAP	0.93811	0.75
55DAP/53DAP	1.0699	0.79
57DAP/55DAP	0.99393	0.909
62DAP/57DAP	0.99742	1
68DAP/62DAP	1.03298	0.962
68DAP/14DAP	0.94324	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89354	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.98302	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90529	0.634
1-1-2/M82	0.69746
12-2/M82	0.91825	0.955
12-4/M82	1.08093	1
1-3/M82	0.85956	0.441
2-1-1/M82	1.25092	0.403
2-1/M82	N/A	N/A
2-6/M82	1.036	1
3-2/M82	N/A	N/A
4-1-1/M82	0.84619	0.985
4-1/M82	0.76534	1
4-3-2/M82	0.87678
4-3/M82	N/A	N/A
5-3/M82	1.02252	1
6-2/M82	0.9701
6-3/M82	0.95748	1
7-1/M82	N/A	N/A
7-2/M82	0.93658	0.578
9-3-2/M82	0.68819	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79205	0.247
IL2-6/WTpooled	0.86879	1
IL7-5/WTpooled	0.94869	1
IL7-3/WTpooled	0.93117	0.418
IL12-4/WTpooled	1.1763
IL1-4/WTpooled	0.90773
WT/WTpooled	0.94866

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	1.11336	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01461	0.921
DC3000/delta hrp 6h	0.98547	0.95
DC3000/delta hrp 12h	1.05007	1
DC3000/delta hrp 24h	1.20774	0.077

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0177	0.556
DC3000 delta B/DC3000 delta AB	1.12253	0.345

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08408	1
Exp 36h	0.99892	1
Exp 60h	0.88189	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00388	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.87102	0.363
Var 12h NI row2-row1	1.01715	1
Var 36h I row2-row1	0.79573	0.805
Var 36h NI row2-row1	0.64365	0.645
Var 60h I row2-row1	0.66512	0.285
Var 60h NI row2-row1	1.02815	1
Time course 0hI-0hNI	1.00879	0.867
Time course 12hI-12hNI	0.8796	0.182
Time course 36hI-36hNI	1.12156	0.031
Time course 60hI-60hNI	2.30737	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)	1.29164	0.798
transgenic ySAMdc/azygous control (breaker)	1.4732	1
transgenic ySAMdc/azygous control (red)	1.23896	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99152	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89786	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.57002	0.14
Manapal/WT (break)	1.84647	0.183
Manapal/WT (red)	N/A	N/A