Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.14.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20423	0.839
27DAP/17DAP	0.91638	0.814
39DAP/27DAP	0.70001	0.462
41DAP/39DAP	1.28893	0.806
42DAP/41DAP	1.36853	0.644
43DAP/42DAP	1.29827	1
47DAP/43DAP	0.81387	0.449
52DAP/47DAP	1.18287	0.709
57DAP/52DAP	1.38965	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.92258	0.121
17DAP/reference	1.03348	0.696
27DAP/reference	1.01221	0.953
39DAP/reference	1.0557	0.465
41DAP/reference	1.25824	0.085
42DAP/reference	1.02311	0.931
43DAP/reference	1.09952	0.982
47DAP/reference	0.81429	0.03
52DAP/reference	N/A	N/A
57DAP/reference	1.00283	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90953	0.509
27DAP/17DAP	0.91654	0.241
39DAP/27DAP	1.16921	0.353
41DAP/39DAP	0.89493	0.885
42DAP/41DAP	1.08425	0.991
43DAP/42DAP	0.90651	0.399
47DAP/43DAP	1.74002	0.529
52DAP/47DAP	0.98591	0.93
57DAP/52DAP	0.8077	0.403
57DAP/7DAP	1.83222

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84142	0.074
17DAP/reference	0.91973	0.017
27DAP/reference	0.87137	0.01
39DAP/reference	0.86012	0.011
41DAP/reference	0.9032	0.019
42DAP/reference	0.86678	0.019
43DAP/reference	0.83822	0.011
47DAP/reference	0.79508	0.128
52DAP/reference	0.81167	0.061
57DAP/reference	0.73608	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59995	0.009
17DAP/reference	0.81431	0.548
27DAP/reference	1.35548	0.757
39DAP/reference	1.14242	0.489
41DAP/reference	2.66766	0.091
42DAP/reference	0.83579	0.189
43DAP/reference	1.49707	0.532
47DAP/reference	1.0677
52DAP/reference	1.29116	0.124
57DAP/reference	1.56094	0.031

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88341	0.057
17DAP/reference	0.95799	0.452
27DAP/reference	0.81658	0.025
39DAP/reference	0.79879	0.008
41DAP/reference	0.87273	0.019
42DAP/reference	1.08231	0.943
43DAP/reference	0.79547	0.044
47DAP/reference	N/A	N/A
52DAP/reference	0.79267	0.066
57DAP/reference	1.34686	0.501

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08239	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.83939	0.682
51DAP/34DAP	0.88655	0.674
52DAP/51DAP	0.98841	1
53DAP/52DAP	0.92566	0.732
55DAP/53DAP	1.03864	0.908
57DAP/55DAP	1.39951	0.935
62DAP/57DAP	1.44919	0.723
68DAP/62DAP	1.15259
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95327	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.74769	0.243
IL2-6/WTpooled	0.77539	0.473
IL7-5/WTpooled	0.67358	1
IL7-3/WTpooled	1.1951	1
IL12-4/WTpooled	0.86085	1
IL1-4/WTpooled	0.85762	0.834
WT/WTpooled	1.0005	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	0.91042	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05744	1
DC3000/delta hrp 24h	N/A	N/A

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	1.3911	0.386

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98586	1
Var 0h	0.82332	0.204
Var 12h I row2-row1	0.99648	0.467
Var 12h NI row2-row1	0.88506
Var 36h I row2-row1	1.22017	0.742
Var 36h NI row2-row1	1.1594	0.276
Var 60h I row2-row1	1.22707	0.543
Var 60h NI row2-row1	0.93443	1
Time course 0hI-0hNI	0.9748	0.958
Time course 12hI-12hNI	0.92596	0.39
Time course 36hI-36hNI	1.04068	1
Time course 60hI-60hNI	0.98796	1

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.6558	1
Manapal/WT (red)	N/A	N/A