Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8886	0.558
27DAP/17DAP	0.96226	0.941
39DAP/27DAP	1.18553	0.553
41DAP/39DAP	0.8238	0.478
42DAP/41DAP	0.84645	1
43DAP/42DAP	1.18891	0.867
47DAP/43DAP	0.83549	0.484
52DAP/47DAP	1.03702	0.927
57DAP/52DAP	1.30255	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97765	0.489
17DAP/reference	0.87287	0.06
27DAP/reference	0.79703	0.085
39DAP/reference	0.93544	0.455
41DAP/reference	0.80377	0.014
42DAP/reference	1.11622	0.523
43DAP/reference	1.06861	0.445
47DAP/reference	0.87826	0.016
52DAP/reference	0.90945	0.21
57DAP/reference	1.10261	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92468	0.542
27DAP/17DAP	1.69689	0.042
39DAP/27DAP	0.71823	0.062
41DAP/39DAP	1.07234	0.861
42DAP/41DAP	1.03905	1
43DAP/42DAP	1.08753	0.585
47DAP/43DAP	1.04895	0.956
52DAP/47DAP	0.98228	0.913
57DAP/52DAP	1.21035	0.357
57DAP/7DAP	1.15899	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35628	0.088
17DAP/reference	1.12673	0.032
27DAP/reference	1.10105	0.197
39DAP/reference	1.1932	0.096
41DAP/reference	1.29018	0.056
42DAP/reference	1.44266	0.016
43DAP/reference	1.10513	0.124
47DAP/reference	1.0333	1
52DAP/reference	1.59994	0.009
57DAP/reference	1.35385	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68898	0.031
17DAP/reference	0.71575	0.01
27DAP/reference	0.85233	0.144
39DAP/reference	0.75404	0.016
41DAP/reference	0.90777	0.169
42DAP/reference	0.92034	0.189
43DAP/reference	0.76126	0.053
47DAP/reference	1.17027	0.321
52DAP/reference	0.66052	0.004
57DAP/reference	0.64371	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51243	0.035
17DAP/reference	1.25844	0.347
27DAP/reference	1.2471	0.07
39DAP/reference	1.34699	0.03
41DAP/reference	1.14894	0.115
42DAP/reference	1.18873	0.138
43DAP/reference	1.1704	0.209
47DAP/reference	0.83808	0.013
52DAP/reference	0.7789	0.132
57DAP/reference	1.37862	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88682	0.807
26DAP/20DAP	1.63868	0.404
34DAP/26DAP	0.90211	0.834
51DAP/34DAP	1.59266	0.215
52DAP/51DAP	1.068	0.925
53DAP/52DAP	0.689	0.19
55DAP/53DAP	1.13781	0.922
57DAP/55DAP	1.07743	0.779
62DAP/57DAP	1.32104	0.833
68DAP/62DAP	1.3727	0.026
68DAP/14DAP	1.60458	0.043

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00443	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.20495	0.058
Mature Green Tomato/Ripe Tomato	0.60139	0.086
Immature Eggplant/Mature Eggplant	0.60288	0.063
Ripe Pepper/Ripe Tomato	1.98973
Mature Eggplant/Ripe Tomato	4.43363	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.00501	1
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	2.26971
4-3-2/M82	N/A	N/A
4-3/M82	0.90879
5-3/M82	0.91187	1
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.52801	0.321
IL2-6/WTpooled	0.91164	1
IL7-5/WTpooled	0.74136	1
IL7-3/WTpooled	0.96388	1
IL12-4/WTpooled	0.97191	1
IL1-4/WTpooled	0.79409	0.476
WT/WTpooled	0.95825	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	0.93849	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06195	0.758
DC3000/delta hrp 6h	0.94435	0.95
DC3000/delta hrp 12h	1.1673	1
DC3000/delta hrp 24h	1.03246	0.76

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	0.86344	0.543

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16206	1
Exp 36h	0.79236	0.504
Exp 60h	0.72613	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0473
Var 0h	0.88588	0.933
Var 12h I row2-row1	1.17042	0.692
Var 12h NI row2-row1	1.15916	0.649
Var 36h I row2-row1	0.69569	0.908
Var 36h NI row2-row1	1.12324	1
Var 60h I row2-row1	0.87735	0.582
Var 60h NI row2-row1	1.02936	1
Time course 0hI-0hNI	0.97216	0.879
Time course 12hI-12hNI	0.91847	0.329
Time course 36hI-36hNI	0.8578	0.029
Time course 60hI-60hNI	0.81838	0.009

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)	1.0146	1
transgenic ySAMdc/azygous control (breaker)	1.95518	0.178
transgenic ySAMdc/azygous control (red)	0.93228	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.56643	0.085

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.77009	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.50577	0.086
Manapal/WT (break)	5.22703	0.123
Manapal/WT (red)	2.62719	1