Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.8.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16408	0.838
27DAP/17DAP	0.70015	0.28
39DAP/27DAP	1.45815	0.579
41DAP/39DAP	1.25787	0.649
42DAP/41DAP	1.28335	0.599
43DAP/42DAP	0.80401	0.665
47DAP/43DAP	1.22729	0.809
52DAP/47DAP	0.67999	0.257
57DAP/52DAP	0.9759	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82955	0.033
17DAP/reference	0.89899	0.158
27DAP/reference	0.97827	0.683
39DAP/reference	1.00389	0.975
41DAP/reference	0.83631	0.018
42DAP/reference	0.89158	0.04
43DAP/reference	1.16729	0.057
47DAP/reference	1.17064	0.017
52DAP/reference	1.15757	0.476
57DAP/reference	1.17112	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21214	0.719
27DAP/17DAP	0.80068	0.614
39DAP/27DAP	1.711	0.436
41DAP/39DAP	1.06176	0.827
42DAP/41DAP	1.18468	0.753
43DAP/42DAP	1.10096	0.585
47DAP/43DAP	1.08433	0.939
52DAP/47DAP	0.88291	0.603
57DAP/52DAP	1.09051	0.825
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01501	0.961
17DAP/reference	1.19362	0.896
27DAP/reference	0.79905
39DAP/reference	0.87819	0.264
41DAP/reference	1.17204	0.56
42DAP/reference	1.02808	0.686
43DAP/reference	1.14461	0.569
47DAP/reference	1.24907	0.115
52DAP/reference	1.14352	0.781
57DAP/reference	0.83135	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84255	0.119
17DAP/reference	0.79356	0.009
27DAP/reference	0.9248	0.327
39DAP/reference	1.0238	1
41DAP/reference	0.84366	0.032
42DAP/reference	0.91848	0.289
43DAP/reference	0.67381	0.032
47DAP/reference	1.02233	0.965
52DAP/reference	0.95405	0.38
57DAP/reference	0.78799	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23315	0.903
17DAP/reference	1.02518	0.9
27DAP/reference	0.96995
39DAP/reference	0.97886	0.755
41DAP/reference	0.81673	0.107
42DAP/reference	1.24988	0.5
43DAP/reference	0.79498	0.106
47DAP/reference	1.36402	0.006
52DAP/reference	1.06205	0.705
57DAP/reference	0.8464	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28425	0.878
26DAP/20DAP	1.18316
34DAP/26DAP	1.14331	1
51DAP/34DAP	0.82304	0.714
52DAP/51DAP	1.46131	0.094
53DAP/52DAP	0.76002	0.527
55DAP/53DAP	1.08144	0.746
57DAP/55DAP	0.97891	0.925
62DAP/57DAP	0.68455	0.162
68DAP/62DAP	1.16623	0.85
68DAP/14DAP	1.49186	0.035

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.89081	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.72595	0.132
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	1.12945
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	1.19582
6-2/M82	N/A	N/A
6-3/M82	1.1338
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	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	0.88935
IL1-4/WTpooled	0.9125	1
WT/WTpooled	0.54454

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	1.12565	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.28169	0.921
DC3000/delta hrp 6h	1.01071	0.95
DC3000/delta hrp 12h	0.98415	1
DC3000/delta hrp 24h	0.8615	0.178

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.27106	1
Exp 36h	1.33292	1
Exp 60h	1.4802	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01755
Var 0h	0.50547	1
Var 12h I row2-row1	0.86536	0.357
Var 12h NI row2-row1	1.13171	0.34
Var 36h I row2-row1	1.21132	1
Var 36h NI row2-row1	0.58016	0.478
Var 60h I row2-row1	0.67112	0.285
Var 60h NI row2-row1	0.87368	0.818
Time course 0hI-0hNI	0.9581	0.702
Time course 12hI-12hNI	0.89958	0.147
Time course 36hI-36hNI	2.40152	0.005
Time course 60hI-60hNI	16.2746	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)	1.12759	0.212
transgenic ySAMdc/azygous control (breaker)	0.537	0.15
transgenic ySAMdc/azygous control (red)	1.10141	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00434	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8643	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.66811	0.093
Manapal/WT (break)	1.06643	1
Manapal/WT (red)	1.11934	1