Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.46081	0.029
27DAP/17DAP	1.15718	0.845
39DAP/27DAP	1.71551	0.225
41DAP/39DAP	0.51287	0.041
42DAP/41DAP	1.44865	0.745
43DAP/42DAP	1.00484	0.925
47DAP/43DAP	0.89289	0.64
52DAP/47DAP	0.78805	0.498
57DAP/52DAP	1.06926	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85471	0.111
17DAP/reference	1.33401	0.138
27DAP/reference	1.90647	0.01
39DAP/reference	1.6724	0.049
41DAP/reference	1.38283	0.023
42DAP/reference	2.5398	0.001
43DAP/reference	1.75727	0.007
47DAP/reference	2.96654	0.001
52DAP/reference	2.58669	0.007
57DAP/reference	1.7959	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.64636	0.036
27DAP/17DAP	1.17809	0.557
39DAP/27DAP	0.92536	0.563
41DAP/39DAP	1.68176	1
42DAP/41DAP	1.30928	0.571
43DAP/42DAP	0.84042	0.216
47DAP/43DAP	0.93952	0.734
52DAP/47DAP	1.04981	0.939
57DAP/52DAP	1.066	0.686
57DAP/7DAP	1.93677	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36755	0.095
17DAP/reference	1.41036	0.018
27DAP/reference	2.20325	0.008
39DAP/reference	3.02983	0.005
41DAP/reference	2.34075	0.008
42DAP/reference	2.62051	0.007
43DAP/reference	2.95958	0.006
47DAP/reference	3.78839	0.014
52DAP/reference	3.32953	0.007
57DAP/reference	3.52296	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.53314	0.009
17DAP/reference	1.1345	0.406
27DAP/reference	2.60532	0.013
39DAP/reference	3.04744	0.011
41DAP/reference	2.54068	0.005
42DAP/reference	2.65892	0.007
43DAP/reference	1.28155	0.875
47DAP/reference	2.6298	0.008
52DAP/reference	1.71478	0.006
57DAP/reference	1.31284	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76546	0.037
17DAP/reference	0.83	0.144
27DAP/reference	1.69386	0.017
39DAP/reference	2.14642	0.004
41DAP/reference	1.77382	0.006
42DAP/reference	2.89107	0.006
43DAP/reference	3.28039	0.007
47DAP/reference	2.58336	0.011
52DAP/reference	3.34795	0.03
57DAP/reference	6.3058	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.31385	0.966
26DAP/20DAP	1.81387	0.2
34DAP/26DAP	1.0904	0.542
51DAP/34DAP	0.93799	0.649
52DAP/51DAP	0.70949	0.151
53DAP/52DAP	1.12895	0.565
55DAP/53DAP	0.71959	0.032
57DAP/55DAP	1.25714	0.841
62DAP/57DAP	0.95129	1
68DAP/62DAP	1.14238	1
68DAP/14DAP	1.71744	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.71075	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81937	0.274
Mature Green Tomato/Ripe Tomato	1.36007	0.363
Immature Eggplant/Mature Eggplant	1.42289	0.05
Ripe Pepper/Ripe Tomato	0.63934	0.293
Mature Eggplant/Ripe Tomato	0.68171	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84802	0.907
1-1-2/M82	1.48361	1
12-2/M82	1.01869	1
12-4/M82	1.65397	1
1-3/M82	2.63265	0.248
2-1-1/M82	1.02941	0.764
2-1/M82	0.85601	0.519
2-6/M82	0.97401	1
3-2/M82	1.01544	1
4-1-1/M82	1.09618	1
4-1/M82	4.12488	0.853
4-3-2/M82	1.09173	1
4-3/M82	0.96222	0.72
5-3/M82	1.02675	1
6-2/M82	1.20671	1
6-3/M82	0.95692	1
7-1/M82	1.07332	0.925
7-2/M82	1.43131	0.385
9-3-2/M82	1.07281

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93052	1
IL2-6/WTpooled	1.47131
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.07092	1
IL12-4/WTpooled	0.56699
IL1-4/WTpooled	0.81692	0.834
WT/WTpooled	1.12722	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	1.20804	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15186	0.823
DC3000/delta hrp 6h	1.0608	1
DC3000/delta hrp 12h	1.40163	1
DC3000/delta hrp 24h	0.95119	0.7

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08053	0.25
DC3000 delta B/DC3000 delta AB	1.04539	0.539

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09752	1
Exp 36h	1.02926	1
Exp 60h	1.1834	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.09253	0.748
transgenic ySAMdc/azygous control (breaker)	1.12286	0.248
transgenic ySAMdc/azygous control (red)	1.41595	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.66702	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87951	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80616	1
Manapal/WT (break)	0.96649	1
Manapal/WT (red)	1.04408	1