Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08184	0.755
27DAP/17DAP	1.21231	0.819
39DAP/27DAP	1.23374	0.789
41DAP/39DAP	1.47927	0.363
42DAP/41DAP	0.81847	1
43DAP/42DAP	1.07118	0.937
47DAP/43DAP	1.26679	0.497
52DAP/47DAP	1.13203	0.913
57DAP/52DAP	1.21034	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00143	1
17DAP/reference	0.98649	0.701
27DAP/reference	0.99771	0.867
39DAP/reference	0.98593	0.779
41DAP/reference	0.9942	0.814
42DAP/reference	0.88459	0.001
43DAP/reference	0.99707	0.904
47DAP/reference	0.89681	0.016
52DAP/reference	0.94872	0.162
57DAP/reference	0.98353	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0052	1
27DAP/17DAP	1.01472	0.968
39DAP/27DAP	1.06872	0.565
41DAP/39DAP	1.06716	0.876
42DAP/41DAP	1.017	0.961
43DAP/42DAP	1.03071	0.746
47DAP/43DAP	0.97579	0.861
52DAP/47DAP	1.05996	0.799
57DAP/52DAP	0.97988	0.756
57DAP/7DAP	1.14363	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89564	0.091
17DAP/reference	0.92702	0.094
27DAP/reference	0.81052	0.01
39DAP/reference	0.88726	0.012
41DAP/reference	0.89747	0.025
42DAP/reference	0.85873	0.02
43DAP/reference	0.88188	0.03
47DAP/reference	0.90466	0.101
52DAP/reference	0.87198	0.033
57DAP/reference	0.89019	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99875	0.907
17DAP/reference	0.88424	0.083
27DAP/reference	1.15772	1
39DAP/reference	0.81636	0.018
41DAP/reference	0.87155	0.031
42DAP/reference	0.76944	0.012
43DAP/reference	0.976	0.607
47DAP/reference	0.86648	0.01
52DAP/reference	0.88294	0.013
57DAP/reference	0.98359	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89767	0.119
17DAP/reference	1.00992	0.934
27DAP/reference	0.91831	0.044
39DAP/reference	0.87675	0.037
41DAP/reference	0.89589	0.055
42DAP/reference	0.81675	0.028
43DAP/reference	0.84732	0.035
47DAP/reference	0.98346	0.538
52DAP/reference	0.86191	0.204
57DAP/reference	0.83721	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99219	1
26DAP/20DAP	0.88654	0.512
34DAP/26DAP	0.97196	0.898
51DAP/34DAP	0.91725	0.333
52DAP/51DAP	1.01487	0.848
53DAP/52DAP	1.0821	0.723
55DAP/53DAP	0.9724	0.515
57DAP/55DAP	1.03335	1
62DAP/57DAP	1.11679	0.35
68DAP/62DAP	1.06206	0.845
68DAP/14DAP	1.19253	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91975	0.253

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	2.15562	0.05
Ripe Pepper/Ripe Tomato	0.71899	0.293
Mature Eggplant/Ripe Tomato	0.65007

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0648	0.877
1-1-2/M82	0.97662	1
12-2/M82	1.05701	1
12-4/M82	1.08127	1
1-3/M82	0.79477	0.378
2-1-1/M82	1.16792	0.366
2-1/M82	1.4339
2-6/M82	1.07758	0.695
3-2/M82	0.89277
4-1-1/M82	1.11938	0.72
4-1/M82	1.21918
4-3-2/M82	1.06925
4-3/M82	0.89208	1
5-3/M82	0.95464	0.49
6-2/M82	0.99078	1
6-3/M82	0.94426	1
7-1/M82	N/A	N/A
7-2/M82	0.99233	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.26106	0.277
IL2-6/WTpooled	1.197	0.584
IL7-5/WTpooled	0.85066	1
IL7-3/WTpooled	0.94576	0.31
IL12-4/WTpooled	1.15882	0.785
IL1-4/WTpooled	1.05412	1
WT/WTpooled	1.02152	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	0.96317	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00065	1
DC3000/delta hrp 6h	1.08289	1
DC3000/delta hrp 12h	1.18151	1
DC3000/delta hrp 24h	1.02459	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96827	0.92
DC3000 delta B/DC3000 delta AB	0.90936	0.23

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.90514	0.661
Exp 60h	0.87033	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97614	1
Var 0h	0.61326	0.263
Var 12h I row2-row1	1.02478	0.613
Var 12h NI row2-row1	0.8791	0.713
Var 36h I row2-row1	0.98944	1
Var 36h NI row2-row1	0.86478	0.584
Var 60h I row2-row1	1.29782	0.562
Var 60h NI row2-row1	1.26141	0.904
Time course 0hI-0hNI	1.07081	0.852
Time course 12hI-12hNI	1.02622	0.788
Time course 36hI-36hNI	1.05176	0.401
Time course 60hI-60hNI	1.14824	0.037

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)	0.95581	0.315
transgenic ySAMdc/azygous control (breaker)	0.89738	0.173
transgenic ySAMdc/azygous control (red)	1.04629	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97664	0.404

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0943	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80728	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.8657	0.315