Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.4.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04475	0.755
27DAP/17DAP	0.90843	0.801
39DAP/27DAP	0.7775	0.397
41DAP/39DAP	1.12794	0.349
42DAP/41DAP	0.92549	1
43DAP/42DAP	0.97747	0.925
47DAP/43DAP	1.21324	0.455
52DAP/47DAP	1.34228	0.794
57DAP/52DAP	1.00259	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98906	0.661
17DAP/reference	1.31112	0.025
27DAP/reference	0.94978	0.514
39DAP/reference	1.16102	0.058
41DAP/reference	1.27708	0.073
42DAP/reference	0.88859	0.034
43DAP/reference	1.03932	0.646
47DAP/reference	0.89362	0.09
52DAP/reference	0.85597	0.131
57DAP/reference	0.66599	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88456	0.311
27DAP/17DAP	1.19092	0.604
39DAP/27DAP	1.20776	0.526
41DAP/39DAP	0.80687	0.121
42DAP/41DAP	1.09025	0.694
43DAP/42DAP	0.97142	0.751
47DAP/43DAP	0.92453	0.597
52DAP/47DAP	1.27038	0.417
57DAP/52DAP	1.03994	1
57DAP/7DAP	0.92048	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12077	0.305
17DAP/reference	1.68907	0.007
27DAP/reference	1.34853	0.007
39DAP/reference	1.21797	0.027
41DAP/reference	1.21407	0.325
42DAP/reference	1.26654	0.046
43DAP/reference	1.37768	0.02
47DAP/reference	1.19297	0.804
52DAP/reference	1.53459	0.008
57DAP/reference	1.58656	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01203	0.993
17DAP/reference	1.07727	0.874
27DAP/reference	0.79062	0.076
39DAP/reference	0.87444	0.173
41DAP/reference	0.86074	0.057
42DAP/reference	0.73913	0.03
43DAP/reference	0.99475	0.736
47DAP/reference	0.85363	0.047
52DAP/reference	1.00067	0.761
57DAP/reference	1.42079	0.083

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20109	0.076
17DAP/reference	1.06868	0.898
27DAP/reference	1.38345	0.049
39DAP/reference	1.32392	0.034
41DAP/reference	1.37031	0.044
42DAP/reference	1.10747	0.658
43DAP/reference	1.12475	0.88
47DAP/reference	0.89862	0.174
52DAP/reference	1.24098	0.182
57DAP/reference	0.61896	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99041	1
26DAP/20DAP	0.74946	0.317
34DAP/26DAP	1.2066	0.819
51DAP/34DAP	0.84651	0.158
52DAP/51DAP	1.11474	0.534
53DAP/52DAP	0.95907	0.83
55DAP/53DAP	1.37565	0.295
57DAP/55DAP	1.0914	0.986
62DAP/57DAP	1.29249	0.723
68DAP/62DAP	0.8451	0.609
68DAP/14DAP	0.71004	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75238	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92579	0.487
Immature Eggplant/Mature Eggplant	2.32541	0.051
Ripe Pepper/Ripe Tomato	0.62704	0.224
Mature Eggplant/Ripe Tomato	0.35928	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09637	1
1-1-2/M82	0.96247	1
12-2/M82	1.10849	1
12-4/M82	0.9689	1
1-3/M82	0.88867	0.441
2-1-1/M82	1.1098	N/A
2-1/M82	1.11675	N/A
2-6/M82	0.986	1
3-2/M82	0.77103	N/A
4-1-1/M82	0.91538	0.985
4-1/M82	0.85307	1
4-3-2/M82	0.82893	0.698
4-3/M82	0.90151	1
5-3/M82	1.01249	1
6-2/M82	0.98418	1
6-3/M82	0.98198	1
7-1/M82	0.89319	0.803
7-2/M82	1.04025	1
9-3-2/M82	0.79228	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.50629	N/A
WT/WTpooled	1.18414	N/A

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	1.65958	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94763	1
DC3000/delta hrp 6h	1.10438	1
DC3000/delta hrp 12h	1.05093	1
DC3000/delta hrp 24h	1.05039	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.86173	0.355
DC3000 delta B/DC3000 delta AB	1.26319	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91172	1
Exp 36h	1.53225	0.489
Exp 60h	1.18891	0.206

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

hybridization	ratio	FDR (corrected p value)
self-self	0.991	1
Var 0h	0.91252	N/A
Var 12h I row2-row1	0.86342	0.705
Var 12h NI row2-row1	0.95654	0.906
Var 36h I row2-row1	0.99476	1
Var 36h NI row2-row1	1.28824	1
Var 60h I row2-row1	0.98593	0.306
Var 60h NI row2-row1	1.18926	0.904
Time course 0hI-0hNI	1.07989	0.852
Time course 12hI-12hNI	0.97468	0.864
Time course 36hI-36hNI	0.99647	0.718
Time course 60hI-60hNI	0.87035	0.161

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)	1.03965	0.571
transgenic ySAMdc/azygous control (breaker)	1.11605	0.248
transgenic ySAMdc/azygous control (red)	0.89711	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.80753	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94616	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95523	1
Manapal/WT (break)	0.77171	0.333
Manapal/WT (red)	0.9596	0.503