Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.11.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77365	0.111
27DAP/17DAP	0.99651	1
39DAP/27DAP	1.01537	0.749
41DAP/39DAP	1.09762	0.894
42DAP/41DAP	0.94501	1
43DAP/42DAP	0.70712	0.639
47DAP/43DAP	1.41735	0.502
52DAP/47DAP	1.76678	0.496
57DAP/52DAP	1.33836	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17814	0.48
17DAP/reference	0.71256	0.06
27DAP/reference	1.00789	0.683
39DAP/reference	0.67659	0.041
41DAP/reference	0.56584	0.026
42DAP/reference	1.06143	0.931
43DAP/reference	1.06446	0.812
47DAP/reference	1.16299	0.215
52DAP/reference	1.31303	0.576
57DAP/reference	1.75898	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90464	0.289
27DAP/17DAP	1.12748	0.61
39DAP/27DAP	0.86455	0.167
41DAP/39DAP	0.98666	1
42DAP/41DAP	1.1417	0.582
43DAP/42DAP	1.04897	0.664
47DAP/43DAP	0.89584	0.357
52DAP/47DAP	1.00457	0.97
57DAP/52DAP	1.18993	0.193
57DAP/7DAP	1.04393	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8974	0.088
17DAP/reference	0.88087	0.017
27DAP/reference	0.88543	0.012
39DAP/reference	0.90908	0.013
41DAP/reference	0.89908	0.016
42DAP/reference	0.83842	0.111
43DAP/reference	0.92704	0.059
47DAP/reference	0.97413	0.671
52DAP/reference	1.0343	0.732
57DAP/reference	0.94876	0.162

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65166	0.012
17DAP/reference	0.62898	0.036
27DAP/reference	0.77195	0.051
39DAP/reference	0.78454	0.034
41DAP/reference	0.86419	0.094
42DAP/reference	1.0479	0.951
43DAP/reference	0.83352	0.217
47DAP/reference	0.75328	0.035
52DAP/reference	0.81877	0.031
57DAP/reference	0.71972	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90234	0.135
17DAP/reference	0.93373	0.305
27DAP/reference	0.87388	0.089
39DAP/reference	0.93163	0.179
41DAP/reference	0.8886	0.019
42DAP/reference	1.00476	0.816
43DAP/reference	0.99151	0.712
47DAP/reference	1.23663	0.03
52DAP/reference	1.11407	0.77
57DAP/reference	1.38314	0.121

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16312	0.966
26DAP/20DAP	1.16312	0.587
34DAP/26DAP	1.04194	1
51DAP/34DAP	1.28881	0.044
52DAP/51DAP	1.0068	1
53DAP/52DAP	0.79281	0.097
55DAP/53DAP	1.05146	0.741
57DAP/55DAP	1.02857	0.914
62DAP/57DAP	0.94015	0.871
68DAP/62DAP	1.60321	0.23
68DAP/14DAP	2.18995	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75188	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81988	0.276
Mature Green Tomato/Ripe Tomato	0.75188	0.317
Immature Eggplant/Mature Eggplant	1.115	0.321
Ripe Pepper/Ripe Tomato	1.48974	0.258
Mature Eggplant/Ripe Tomato	0.79998	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08001
1-1-2/M82	0.84617	1
12-2/M82	1.12854	0.61
12-4/M82	0.93838	1
1-3/M82	0.87759	0.501
2-1-1/M82	1.28989	0.689
2-1/M82	1.10275
2-6/M82	0.81343	1
3-2/M82	1.04607	0.388
4-1-1/M82	0.89416	1
4-1/M82	0.95969	1
4-3-2/M82	3.22851	1
4-3/M82	1.04293	1
5-3/M82	0.99231	1
6-2/M82	0.6597	0.481
6-3/M82	0.98359	1
7-1/M82	0.82282
7-2/M82	0.87619	0.527
9-3-2/M82	1.04792

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89138
IL2-6/WTpooled	1.58216	0.456
IL7-5/WTpooled	0.5365	0.559
IL7-3/WTpooled	0.97847	1
IL12-4/WTpooled	1.0335	0.891
IL1-4/WTpooled	1.57319	1
WT/WTpooled	1.09713	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	1.01998	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05169	0.914
DC3000/delta hrp 6h	1.1808	1
DC3000/delta hrp 12h	0.91578	1
DC3000/delta hrp 24h	1.14673	0.221

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	1.21951	0.272

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93531	1
Exp 36h	1.23181	0.489
Exp 60h	1.25296	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98499	1
Var 0h	0.95331	1
Var 12h I row2-row1	1.09976	0.544
Var 12h NI row2-row1	1.10346	0.34
Var 36h I row2-row1	1.06695	0.908
Var 36h NI row2-row1	0.78192	0.302
Var 60h I row2-row1	0.74116	0.292
Var 60h NI row2-row1	0.9059	0.756
Time course 0hI-0hNI	1.03351	0.852
Time course 12hI-12hNI	1.01406	0.818
Time course 36hI-36hNI	1.2374	0.004
Time course 60hI-60hNI	2.35054	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)	0.94848	0.338
transgenic ySAMdc/azygous control (breaker)	1.11532	0.248
transgenic ySAMdc/azygous control (red)	1.03533	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97861	0.256

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91601	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90145	1
Manapal/WT (break)	0.7665	0.333
Manapal/WT (red)	0.68949	0.181