Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.3.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06423	0.878
27DAP/17DAP	1.09073	0.885
39DAP/27DAP	0.822	0.495
41DAP/39DAP	1.00524	0.905
42DAP/41DAP	1.15622	0.825
43DAP/42DAP	1.1162	0.906
47DAP/43DAP	1.24742	0.463
52DAP/47DAP	0.73434	0.377
57DAP/52DAP	0.99531	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3828	0.278
17DAP/reference	1.3466	0.22
27DAP/reference	1.01572	1
39DAP/reference	1.2682	0.434
41DAP/reference	1.85534	0.093
42DAP/reference	1.07588	0.366
43DAP/reference	1.29135	0.042
47DAP/reference	1.24149	0.254
52DAP/reference	1.12448	0.498
57DAP/reference	1.19182	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9755	0.732
27DAP/17DAP	0.89586	0.227
39DAP/27DAP	0.9568	0.587
41DAP/39DAP	1.05019	0.837
42DAP/41DAP	1.05969	0.783
43DAP/42DAP	0.73734	0.034
47DAP/43DAP	0.96118	0.823
52DAP/47DAP	0.84028	0.132
57DAP/52DAP	0.98402	0.789
57DAP/7DAP	1.05332	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71612	0.066
17DAP/reference	0.88971	0.124
27DAP/reference	0.89268	0.109
39DAP/reference	0.78569	0.056
41DAP/reference	0.82522	0.16
42DAP/reference	0.80527	0.073
43DAP/reference	0.94705	0.403
47DAP/reference	0.99413	1
52DAP/reference	0.82223	0.115
57DAP/reference	0.8062	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27154	0.33
17DAP/reference	1.34908	0.216
27DAP/reference	1.16555	0.735
39DAP/reference	1.12215	0.073
41DAP/reference	1.05325	0.683
42DAP/reference	0.95177	0.433
43DAP/reference	1.19477	0.462
47DAP/reference	1.27028	0.943
52DAP/reference	1.17958	0.181
57DAP/reference	1.30782	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8648	0.158
17DAP/reference	1.05618	1
27DAP/reference	0.95351	0.442
39DAP/reference	0.87857	0.111
41DAP/reference	0.85212	0.167
42DAP/reference	0.88025	0.361
43DAP/reference	0.95769	0.545
47DAP/reference	2.07782	0.012
52DAP/reference	2.05126	0.542
57DAP/reference	0.85802	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94511	1
26DAP/20DAP	0.97561	1
34DAP/26DAP	1.09188	1
51DAP/34DAP	0.95232	0.77
52DAP/51DAP	0.87064	1
53DAP/52DAP	0.80274	0.254
55DAP/53DAP	0.90798	0.725
57DAP/55DAP	0.99671	0.93
62DAP/57DAP	1.28191	0.833
68DAP/62DAP	2.21903	N/A
68DAP/14DAP	1.08269	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.42884	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	1.30788	0.053
Immature Eggplant/Mature Eggplant	1.16993	N/A
Ripe Pepper/Ripe Tomato	1.32375	N/A
Mature Eggplant/Ripe Tomato	1.25575	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85051	0.907
1-1-2/M82	1.11561	1
12-2/M82	0.78846	0.661
12-4/M82	0.97254	1
1-3/M82	2.71407	0.248
2-1-1/M82	0.89242	0.465
2-1/M82	0.77732	0.325
2-6/M82	0.81213	1
3-2/M82	1.51464	N/A
4-1-1/M82	1.12186	1
4-1/M82	0.57721	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.10883	1
5-3/M82	1.2965	0.467
6-2/M82	1.0862	1
6-3/M82	N/A	N/A
7-1/M82	0.77022	N/A
7-2/M82	1.28755	0.324
9-3-2/M82	1.05326	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.64902	0.243
IL2-6/WTpooled	1.33886	0.381
IL7-5/WTpooled	1.0763	1
IL7-3/WTpooled	1.03573	1
IL12-4/WTpooled	1.0345	0.891
IL1-4/WTpooled	0.90603	0.834
WT/WTpooled	1.04204	0.999

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	1.29344	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1172	0.692
DC3000/delta hrp 6h	1.06024	N/A
DC3000/delta hrp 12h	1.02977	1
DC3000/delta hrp 24h	1.01338	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20346	0.556
DC3000 delta B/DC3000 delta AB	1.0512	0.687

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	0.6318	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97141	1
Var 0h	1.29413	0.936
Var 12h I row2-row1	0.92486	0.705
Var 12h NI row2-row1	1.11753	1
Var 36h I row2-row1	1.29831	0.601
Var 36h NI row2-row1	1.19707	1
Var 60h I row2-row1	0.94291	0.952
Var 60h NI row2-row1	0.98907	1
Time course 0hI-0hNI	0.87686	0.241
Time course 12hI-12hNI	0.98481	0.909
Time course 36hI-36hNI	1.21465	0.316
Time course 60hI-60hNI	1.00419	1

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)	1.18768	0.862
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.6133	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99792	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07038	1

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)	N/A	N/A
Manapal/WT (red)	1.6666	0.164