Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.10.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9042	0.532
27DAP/17DAP	1.22357	0.857
39DAP/27DAP	1.0125	1
41DAP/39DAP	1.10351	0.676
42DAP/41DAP	1.07803	0.938
43DAP/42DAP	0.99993	0.937
47DAP/43DAP	1.05662	0.702
52DAP/47DAP	0.85508	0.602
57DAP/52DAP	0.93668	0.86

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0211	1
17DAP/reference	1.06164	0.166
27DAP/reference	1.00384	0.923
39DAP/reference	0.97076	0.624
41DAP/reference	1.14335	0.018
42DAP/reference	0.95358	0.12
43DAP/reference	1.08227	0.202
47DAP/reference	1.00397	0.72
52DAP/reference	0.95817	0.292
57DAP/reference	0.82131	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88815	0.442
27DAP/17DAP	0.93724	0.887
39DAP/27DAP	1.16933	0.499
41DAP/39DAP	1.02415	1
42DAP/41DAP	0.97176	0.751
43DAP/42DAP	1.09093	0.664
47DAP/43DAP	1.04424	0.957
52DAP/47DAP	1.05222	0.9
57DAP/52DAP	0.94843	0.68
57DAP/7DAP	0.74213	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18439	0.393
17DAP/reference	1.15057	0.077
27DAP/reference	1.19748	0.16
39DAP/reference	1.06808	0.46
41DAP/reference	1.22053	0.029
42DAP/reference	1.10225	0.405
43DAP/reference	0.94781	0.305
47DAP/reference	1.07525	0.901
52DAP/reference	1.17982	0.139
57DAP/reference	1.0018	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23359	0.056
17DAP/reference	1.26342	0.079
27DAP/reference	1.0331	1
39DAP/reference	1.00893	0.745
41DAP/reference	0.96621	0.412
42DAP/reference	1.02351	1
43DAP/reference	1.24491	0.255
47DAP/reference	0.9317	0.133
52DAP/reference	1.24544	0.079
57DAP/reference	1.40113	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10567	0.251
17DAP/reference	1.1582	0.456
27DAP/reference	1.23101	0.096
39DAP/reference	1.11507	0.235
41DAP/reference	1.1834	0.134
42DAP/reference	0.80142	0.071
43DAP/reference	1.00097	0.712
47DAP/reference	1.04402	0.61
52DAP/reference	0.8951	0.455
57DAP/reference	0.71409	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86857	0.981
26DAP/20DAP	0.96663	1
34DAP/26DAP	0.98268	0.991
51DAP/34DAP	1.40581	0.171
52DAP/51DAP	0.98556	1
53DAP/52DAP	4.46915	0.024
55DAP/53DAP	1.95996	0.039
57DAP/55DAP	1.69172	0.364
62DAP/57DAP	0.23033	0.002
68DAP/62DAP	1.22539	1
68DAP/14DAP	2.93	0.023

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87329	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.10294	0.046
Mature Green Tomato/Ripe Tomato	1.02243	0.774
Immature Eggplant/Mature Eggplant	0.61854	0.075
Ripe Pepper/Ripe Tomato	19.0735	0.256
Mature Eggplant/Ripe Tomato	1.07995	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.76158	0.638
1-1-2/M82	0.98908	1
12-2/M82	0.93153	0.955
12-4/M82	0.66662	0.619
1-3/M82	1.17626	0.248
2-1-1/M82	0.71282	0.565
2-1/M82	0.95906	1
2-6/M82	0.73125	1
3-2/M82	0.70689
4-1-1/M82	0.88654	1
4-1/M82	0.5922
4-3-2/M82	N/A	N/A
4-3/M82	0.70238	0.611
5-3/M82	1.1363	0.455
6-2/M82	0.63091	0.481
6-3/M82	1.04275	1
7-1/M82	0.9574	0.803
7-2/M82	1.3131	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05606	0.493
IL2-6/WTpooled	0.95525	1
IL7-5/WTpooled	0.71633	1
IL7-3/WTpooled	0.98375	1
IL12-4/WTpooled	0.82068	0.484
IL1-4/WTpooled	1.07651	1
WT/WTpooled	0.98644	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	1.43507	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98248	1
DC3000/delta hrp 6h	1.23789	0.978
DC3000/delta hrp 12h	1.26167	1
DC3000/delta hrp 24h	1.16798	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.49817
DC3000 delta B/DC3000 delta AB	0.8095	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15449	1
Exp 36h	1.22015	0.489
Exp 60h	0.87173	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97353	1
Var 0h	0.90898	0.933
Var 12h I row2-row1	0.94722	0.467
Var 12h NI row2-row1	1.16793	1
Var 36h I row2-row1	1.23056	0.601
Var 36h NI row2-row1	1.04643	1
Var 60h I row2-row1	0.97202	1
Var 60h NI row2-row1	0.8353	0.516
Time course 0hI-0hNI	1.16045	0.451
Time course 12hI-12hNI	0.89354	0.49
Time course 36hI-36hNI	1.08155	0.513
Time course 60hI-60hNI	0.80607	0.011

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)	0.90847	0.306
transgenic ySAMdc/azygous control (breaker)	0.62295	0.15
transgenic ySAMdc/azygous control (red)	1.04046	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89339	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.50735	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13081	1
Manapal/WT (break)	1.14106	1
Manapal/WT (red)	1.0658	0.413