Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95366	0.788
27DAP/17DAP	0.97578	0.992
39DAP/27DAP	0.62865	0.443
41DAP/39DAP	1.38631	0.076
42DAP/41DAP	1.135	0.949
43DAP/42DAP	0.90928	0.91
47DAP/43DAP	0.90114	0.729
52DAP/47DAP	1.48193	0.515
57DAP/52DAP	1.15869	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93118	0.118
17DAP/reference	1.01295	0.508
27DAP/reference	0.96661	0.552
39DAP/reference	0.99729	0.991
41DAP/reference	0.9604	0.201
42DAP/reference	0.92094	0.046
43DAP/reference	1.05736	0.202
47DAP/reference	0.8758	0.005
52DAP/reference	0.7696	0.082
57DAP/reference	0.80186	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95926	0.663
27DAP/17DAP	0.98752	0.943
39DAP/27DAP	1.08926	0.512
41DAP/39DAP	1.16267	0.849
42DAP/41DAP	1.0233	1
43DAP/42DAP	1.19586	0.103
47DAP/43DAP	1.02095	0.939
52DAP/47DAP	0.98657	0.93
57DAP/52DAP	0.94301	0.488
57DAP/7DAP	1.38605	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75133	0.067
17DAP/reference	0.79487	0.011
27DAP/reference	0.82074	0.03
39DAP/reference	0.8318	0.011
41DAP/reference	0.82081	0.018
42DAP/reference	0.75328	0.01
43DAP/reference	0.78989	0.011
47DAP/reference	0.83591	0.079
52DAP/reference	0.72157	0.017
57DAP/reference	0.76569	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00378	0.993
17DAP/reference	0.98696	0.659
27DAP/reference	0.84726	0.053
39DAP/reference	0.81357	0.049
41DAP/reference	0.81233	0.029
42DAP/reference	0.85062	0.018
43DAP/reference	1.04201	0.697
47DAP/reference	0.86802	0.025
52DAP/reference	1.03298	0.702
57DAP/reference	1.09782	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83363	0.057
17DAP/reference	0.93894	0.47
27DAP/reference	0.7747	0.03
39DAP/reference	0.82077	0.147
41DAP/reference	0.85656	0.025
42DAP/reference	0.71244	0.087
43DAP/reference	0.7241	0.095
47DAP/reference	0.92989	0.296
52DAP/reference	0.75667	0.167
57DAP/reference	0.56328	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00563	1
26DAP/20DAP	0.87005	0.317
34DAP/26DAP	0.96524	0.97
51DAP/34DAP	0.96396	0.791
52DAP/51DAP	0.8956	1
53DAP/52DAP	0.98104	0.891
55DAP/53DAP	0.96164	0.675
57DAP/55DAP	1.05463	0.841
62DAP/57DAP	1.19083	0.35
68DAP/62DAP	0.88983	0.429
68DAP/14DAP	1.01064	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01996	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.9467	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.50785	0.293
Mature Eggplant/Ripe Tomato	0.22124

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0363	1
1-1-2/M82	0.74802	0.958
12-2/M82	1.10748	1
12-4/M82	0.89364	1
1-3/M82	0.86844	0.378
2-1-1/M82	1.02598	1
2-1/M82	1.15951
2-6/M82	1.06396	0.695
3-2/M82	0.94219	1
4-1-1/M82	0.99205	1
4-1/M82	1.00698	1
4-3-2/M82	0.87049	1
4-3/M82	0.81099	1
5-3/M82	1.01977	1
6-2/M82	0.88836	1
6-3/M82	1.06795	1
7-1/M82	1.09891
7-2/M82	1.11806	1
9-3-2/M82	0.81035	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85148	0.243
IL2-6/WTpooled	1.12316	0.584
IL7-5/WTpooled	1.44845	0.792
IL7-3/WTpooled	0.99666	1
IL12-4/WTpooled	0.96667	1
IL1-4/WTpooled	1.11613	1
WT/WTpooled	0.99403	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	0.92562	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92327	1
DC3000/delta hrp 6h	1.18925	1
DC3000/delta hrp 12h	1.12838	1
DC3000/delta hrp 24h	1.01295	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.35762	0.515
DC3000 delta B/DC3000 delta AB	0.98985	0.983

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93995	0.328
Exp 36h	0.87595	0.699
Exp 60h	0.93217	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95648	1
Var 0h	1.24908	0.782
Var 12h I row2-row1	1.06217	0.654
Var 12h NI row2-row1	0.96012	0.906
Var 36h I row2-row1	1.01558	1
Var 36h NI row2-row1	0.89585	0.645
Var 60h I row2-row1	1.26849	0.562
Var 60h NI row2-row1	1.22109	0.904
Time course 0hI-0hNI	0.97594	0.892
Time course 12hI-12hNI	1.03741	0.785
Time course 36hI-36hNI	1.06312	0.147
Time course 60hI-60hNI	1.118	0.137

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)	0.8826	0.299
transgenic ySAMdc/azygous control (breaker)	2.53744	0.172
transgenic ySAMdc/azygous control (red)	0.98107	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01953	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91452	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19347	0.307
Manapal/WT (break)	0.7061	0.333
Manapal/WT (red)	1.253	0.133