Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.19.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34231	0.138
27DAP/17DAP	1.39807	0.761
39DAP/27DAP	0.94851	0.67
41DAP/39DAP	1.08782	0.676
42DAP/41DAP	1.18938	0.825
43DAP/42DAP	1.14838	0.894
47DAP/43DAP	1.53446	0.412
52DAP/47DAP	0.81124	0.538
57DAP/52DAP	1.08425	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97694	0.589
17DAP/reference	1.09211	0.653
27DAP/reference	1.36219	0.239
39DAP/reference	1.00468	0.779
41DAP/reference	1.32244	0.241
42DAP/reference	1.21479	0.017
43DAP/reference	1.36189	0.042
47DAP/reference	1.04125	1
52DAP/reference	1.2637	0.134
57DAP/reference	1.59665	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90315	0.27
27DAP/17DAP	0.95961	0.724
39DAP/27DAP	1.07505	0.499
41DAP/39DAP	1.13339	0.801
42DAP/41DAP	0.96999	0.717
43DAP/42DAP	1.04746	0.627
47DAP/43DAP	1.07705	0.749
52DAP/47DAP	1.01986	0.945
57DAP/52DAP	1.08942	0.5
57DAP/7DAP	1.01778	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74088	0.056
17DAP/reference	0.828	0.072
27DAP/reference	0.66092	0.01
39DAP/reference	0.8678	0.109
41DAP/reference	0.61582	0.02
42DAP/reference	0.93852	0.304
43DAP/reference	1.00091	0.665
47DAP/reference	1.14847	0.595
52DAP/reference	0.83751	0.077
57DAP/reference	0.9468	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.042	0.852
17DAP/reference	1.33243	0.151
27DAP/reference	0.82958	0.257
39DAP/reference	0.7681	0.289
41DAP/reference	1.11892	0.471
42DAP/reference	1.7588	0.185
43DAP/reference	1.06995	0.761
47DAP/reference	1.0601	0.833
52DAP/reference	1.13487	0.343
57DAP/reference	0.91596	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93307	0.362
17DAP/reference	0.91426	0.426
27DAP/reference	0.77316	0.039
39DAP/reference	0.85113	0.063
41DAP/reference	1.06656	0.984
42DAP/reference	1.55651	0.084
43DAP/reference	1.53367	0.046
47DAP/reference	0.78273	0.183
52DAP/reference	1.32843	0.614
57DAP/reference	0.92832	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7849	1
26DAP/20DAP	0.8003	0.512
34DAP/26DAP	1.35013	0.542
51DAP/34DAP	0.93406	0.587
52DAP/51DAP	0.99643	1
53DAP/52DAP	1.08096	0.678
55DAP/53DAP	1.10486	0.653
57DAP/55DAP	1.09078	0.927
62DAP/57DAP	0.89563	0.681
68DAP/62DAP	1.14909	0.944
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79391	0.043

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.9571	0.835
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.27044

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.03325	1
12-2/M82	0.50563	0.955
12-4/M82	0.67169
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	0.87923
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	0.8814

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.28857	0.277
IL2-6/WTpooled	0.87568	1
IL7-5/WTpooled	1.39479	0.792
IL7-3/WTpooled	1.13154	1
IL12-4/WTpooled	1.20645	0.516
IL1-4/WTpooled	1.22039	0.426
WT/WTpooled	0.93177	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	0.97509	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93427	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.04331	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.5558
DC3000 delta B/DC3000 delta AB	1.08516	0.423

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	1.02616	1
Var 0h	0.70084	1
Var 12h I row2-row1	1.1758	0.242
Var 12h NI row2-row1	0.81739	0.649
Var 36h I row2-row1	0.92037	0.438
Var 36h NI row2-row1	0.90693	0.645
Var 60h I row2-row1	1.23184	1
Var 60h NI row2-row1	1.09325	0.904
Time course 0hI-0hNI	1.00958	1
Time course 12hI-12hNI	0.96259	0.782
Time course 36hI-36hNI	0.96487	0.484
Time course 60hI-60hNI	1.14022	0.16

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)	0.92495	1
transgenic ySAMdc/azygous control (red)	0.85843	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90014	0.172

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19099	0.277

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)	0.83804	1
Manapal/WT (red)	N/A	N/A