Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.4.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78399	0.134
27DAP/17DAP	0.90947	0.8
39DAP/27DAP	1.37809	0.147
41DAP/39DAP	0.82115	0.412
42DAP/41DAP	0.68362	0.774
43DAP/42DAP	0.85104	0.713
47DAP/43DAP	0.84154	0.48
52DAP/47DAP	0.84428	0.595
57DAP/52DAP	1.15656	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.29165	0.006
17DAP/reference	1.19648	0.22
27DAP/reference	1.05532	0.457
39DAP/reference	0.94262	0.381
41DAP/reference	0.8972	0.201
42DAP/reference	1.15692	0.001
43DAP/reference	0.90283	0.234
47DAP/reference	0.91044	0.098
52DAP/reference	0.86093	0.139
57DAP/reference	0.99449	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86229	0.323
27DAP/17DAP	1.51266	0.046
39DAP/27DAP	0.65922	0.037
41DAP/39DAP	1.0289	1
42DAP/41DAP	0.90878	0.382
43DAP/42DAP	0.73034	0.045
47DAP/43DAP	0.87591	0.207
52DAP/47DAP	1.05258	0.945
57DAP/52DAP	1.17207	0.378
57DAP/7DAP	0.51549	0.157

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68318	0.024
17DAP/reference	1.01011	1
27DAP/reference	1.31014	0.01
39DAP/reference	1.02372	0.779
41DAP/reference	1.35298	0.014
42DAP/reference	1.84734	0.007
43DAP/reference	2.62367	0.006
47DAP/reference	1.95941	0.018
52DAP/reference	1.77667	0.007
57DAP/reference	0.88109	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73328	0.038
17DAP/reference	2.05141	0.007
27DAP/reference	1.71042	0.013
39DAP/reference	1.35727	0.013
41DAP/reference	1.52954	0.008
42DAP/reference	1.35637	0.064
43DAP/reference	0.81307	0.077
47DAP/reference	0.84202	0.061
52DAP/reference	0.78781	0.28
57DAP/reference	0.88826	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40955	0.017
17DAP/reference	0.95412	0.56
27DAP/reference	1.12356	0.078
39DAP/reference	1.61782	0.006
41DAP/reference	0.98214	0.618
42DAP/reference	1.3589	0.146
43DAP/reference	1.33306	0.164
47DAP/reference	0.69764	0.009
52DAP/reference	1.03243	0.99
57DAP/reference	0.84456	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07016	0.966
26DAP/20DAP	1.98884	0.097
34DAP/26DAP	0.98004	0.898
51DAP/34DAP	1.10998	0.377
52DAP/51DAP	1.02019	1
53DAP/52DAP	1.12434	0.537
55DAP/53DAP	0.84319	0.21
57DAP/55DAP	1.14573	0.906
62DAP/57DAP	0.88282	0.871
68DAP/62DAP	1.0144	0.914
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.78841	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.58224	0.058
Mature Green Tomato/Ripe Tomato	1.86268	0.07
Immature Eggplant/Mature Eggplant	2.30216	0.05
Ripe Pepper/Ripe Tomato	1.16047	1
Mature Eggplant/Ripe Tomato	1.49409	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17113	0.455
1-1-2/M82	1.11835	1
12-2/M82	N/A	N/A
12-4/M82	0.95739	0.319
1-3/M82	2.01969	0.277
2-1-1/M82	0.70661
2-1/M82	0.60879	0.322
2-6/M82	1.11788	0.594
3-2/M82	1.04104
4-1-1/M82	N/A	N/A
4-1/M82	0.50828
4-3-2/M82	1.36714
4-3/M82	1.412	0.268
5-3/M82	0.94224	1
6-2/M82	N/A	N/A
6-3/M82	0.95767	1
7-1/M82	0.82026	0.803
7-2/M82	1.20963	1
9-3-2/M82	1.06786

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.22894
IL2-6/WTpooled	0.76432	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16751	1
IL12-4/WTpooled	0.99879	1
IL1-4/WTpooled	0.99932
WT/WTpooled	0.9945	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	1.04008	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02004	0.921
DC3000/delta hrp 6h	0.93657	0.95
DC3000/delta hrp 12h	0.9569	1
DC3000/delta hrp 24h	1.05675	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2303	0.073
DC3000 delta B/DC3000 delta AB	1.10381	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85707	1
Exp 36h	0.96601	0.943
Exp 60h	0.83272	0.343

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	1.07326	0.374
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)	0.8703	0.299
transgenic ySAMdc/azygous control (breaker)	1.04714	0.248
transgenic ySAMdc/azygous control (red)	0.99771	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08461	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69939	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92098	1
Manapal/WT (break)	1.03236	1
Manapal/WT (red)	1.07559	1