Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.17.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8803	0.445
27DAP/17DAP	1.19196	0.845
39DAP/27DAP	1.3062	0.649
41DAP/39DAP	0.8705	0.586
42DAP/41DAP	1.05788	0.967
43DAP/42DAP	1.18992	0.906
47DAP/43DAP	0.87223	0.58
52DAP/47DAP	1.11952	0.804
57DAP/52DAP	1.38239	0.616

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39931	0.037
17DAP/reference	1.46283	0.022
27DAP/reference	1.17055	0.19
39DAP/reference	1.23068	0.747
41DAP/reference	1.58129	0.012
42DAP/reference	1.12229	0.166
43DAP/reference	1.28257	0.202
47DAP/reference	1.01843	1
52DAP/reference	1.17125	0.096
57DAP/reference	0.89963	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22076	0.179
27DAP/17DAP	1.02037	0.973
39DAP/27DAP	1.13512	0.422
41DAP/39DAP	1.00309	0.997
42DAP/41DAP	1.16384	0.334
43DAP/42DAP	1.41712	0.019
47DAP/43DAP	1.03692	0.914
52DAP/47DAP	0.95177	0.837
57DAP/52DAP	1.17537	0.451
57DAP/7DAP	1.63016	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92118	0.27
17DAP/reference	0.93187	0.22
27DAP/reference	0.89459	0.231
39DAP/reference	0.86842	0.031
41DAP/reference	0.86861	0.184
42DAP/reference	0.8225	0.123
43DAP/reference	0.85355	0.183
47DAP/reference	1.10854	0.44
52DAP/reference	0.88554	0.15
57DAP/reference	1.03281	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01833	0.848
17DAP/reference	1.15801	0.518
27DAP/reference	1.34441	0.221
39DAP/reference	1.04721	1
41DAP/reference	1.27115	0.285
42DAP/reference	1.06873	0.843
43DAP/reference	1.27406	0.222
47DAP/reference	1.05043	0.695
52DAP/reference	1.28983	0.098
57DAP/reference	1.12016	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08782	0.456
17DAP/reference	0.88049	0.255
27DAP/reference	0.81375	0.147
39DAP/reference	0.978	0.591
41DAP/reference	0.98139	0.618
42DAP/reference	0.92482	0.552
43DAP/reference	1.10599	0.634
47DAP/reference	1.07951	0.63
52DAP/reference	1.26167	0.876
57DAP/reference	0.88883	0.195

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06155	1
26DAP/20DAP	1.02273	1
34DAP/26DAP	1.41742	0.819
51DAP/34DAP	1.03577	0.909
52DAP/51DAP	0.95719	1
53DAP/52DAP	1.147	0.738
55DAP/53DAP	1.13511	0.781
57DAP/55DAP	0.88081	0.49
62DAP/57DAP	0.57465	0.016
68DAP/62DAP	0.91461	0.769
68DAP/14DAP	0.45466

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.64409	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.89261	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.5884	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.87478
12-2/M82	N/A	N/A
12-4/M82	0.85259	1
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	1.08478	1
4-3-2/M82	0.71048
4-3/M82	1.068
5-3/M82	1.18318	1
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	0.99409	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.79493	0.493
IL2-6/WTpooled	1.37191	0.419
IL7-5/WTpooled	1.27049
IL7-3/WTpooled	0.934	1
IL12-4/WTpooled	1.17416	0.839
IL1-4/WTpooled	1.31574	1
WT/WTpooled	1.02734	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	1.00294	1

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	1.03063	1
DC3000/delta hrp 24h	0.94179	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31195
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	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	1.0143	1
Var 0h	0.51842	1
Var 12h I row2-row1	1.4177	0.211
Var 12h NI row2-row1	1.18097	0.34
Var 36h I row2-row1	1.06824	1
Var 36h NI row2-row1	0.49257	0.413
Var 60h I row2-row1	0.82544	0.439
Var 60h NI row2-row1	0.86613	0.818
Time course 0hI-0hNI	0.99278	0.988
Time course 12hI-12hNI	1.16013	0.415
Time course 36hI-36hNI	1.5204	0.005
Time course 60hI-60hNI	2.58157	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)	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	0.96522	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.66854	0.222

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)	1.60683	0.381
Manapal/WT (red)	1.2949	1