Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.5.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25526	0.403
27DAP/17DAP	1.15303	0.833
39DAP/27DAP	0.83763	0.312
41DAP/39DAP	1.03441	0.822
42DAP/41DAP	0.93655	1
43DAP/42DAP	1.08898	0.976
47DAP/43DAP	1.10743	0.659
52DAP/47DAP	0.79535	0.466
57DAP/52DAP	1.09753	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27145	0.093
17DAP/reference	1.45309	0.022
27DAP/reference	1.13617	0.435
39DAP/reference	1.16341	0.165
41DAP/reference	1.74678	0.015
42DAP/reference	1.30788	0.007
43DAP/reference	1.06356	0.982
47DAP/reference	1.28469	0.004
52DAP/reference	1.20321	0.088
57DAP/reference	0.83213	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8737	0.245
27DAP/17DAP	0.93466	0.684
39DAP/27DAP	1.09944	0.623
41DAP/39DAP	1.07103	0.837
42DAP/41DAP	1.17154	0.291
43DAP/42DAP	1.09605	0.413
47DAP/43DAP	1.09811	0.618
52DAP/47DAP	0.97738	0.902
57DAP/52DAP	0.91786	0.498
57DAP/7DAP	0.97546	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.85532	0.025
17DAP/reference	2.11966	0.006
27DAP/reference	1.34286	0.023
39DAP/reference	1.27418	0.012
41DAP/reference	1.60119	0.01
42DAP/reference	1.441	0.009
43DAP/reference	1.24801	0.014
47DAP/reference	1.11879	0.235
52DAP/reference	1.2695	0.058
57DAP/reference	1.01384	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36388	0.048
17DAP/reference	1.44954	0.013
27DAP/reference	1.23358	0.133
39DAP/reference	1.2378	0.128
41DAP/reference	1.03996	1
42DAP/reference	1.25368	0.053
43DAP/reference	1.06486	1
47DAP/reference	1.37731	0.014
52DAP/reference	1.42979	0.057
57DAP/reference	1.59859	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.16168	0.015
17DAP/reference	1.54937	0.043
27DAP/reference	1.34306	0.03
39DAP/reference	1.40331	0.011
41DAP/reference	1.03829	0.554
42DAP/reference	1.00825	1
43DAP/reference	1.15879	0.209
47DAP/reference	1.2904	0.085
52DAP/reference	0.97572	0.69
57DAP/reference	0.78399	0.059

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04523	1
26DAP/20DAP	0.95071	1
34DAP/26DAP	1.20764	0.819
51DAP/34DAP	0.92436	0.681
52DAP/51DAP	0.86932	1
53DAP/52DAP	1.0887	0.678
55DAP/53DAP	1.03625	0.964
57DAP/55DAP	1.42659	0.818
62DAP/57DAP	0.95815	0.994
68DAP/62DAP	0.8206	0.579
68DAP/14DAP	0.63011	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05375	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.19953	0.632
Immature Eggplant/Mature Eggplant	1.25881	0.311
Ripe Pepper/Ripe Tomato	1.24331	1
Mature Eggplant/Ripe Tomato	0.37993	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.815	0.841
1-1-2/M82	1.00709	1
12-2/M82	N/A	N/A
12-4/M82	0.96951	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	0.54328	0.322
2-6/M82	0.97394
3-2/M82	1.01669	1
4-1-1/M82	0.89846
4-1/M82	1.06324
4-3-2/M82	0.88852	0.698
4-3/M82	0.88644
5-3/M82	1.67232	1
6-2/M82	N/A	N/A
6-3/M82	0.98755	1
7-1/M82	1.1038	0.992
7-2/M82	1.25034	1
9-3-2/M82	0.9225	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99152	1
IL2-6/WTpooled	1.08006	1
IL7-5/WTpooled	1.27165	0.792
IL7-3/WTpooled	1.34843	1
IL12-4/WTpooled	0.7481	0.554
IL1-4/WTpooled	1.31564	1
WT/WTpooled	0.98571	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	1.20895	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02152	1
DC3000/delta hrp 6h	0.93416	0.95
DC3000/delta hrp 12h	1.06655	1
DC3000/delta hrp 24h	0.98364	0.945

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	0.83751	0.575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93394	1
Exp 36h	1.09622	1
Exp 60h	1.53254	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97445	1
Var 0h	1.00517	1
Var 12h I row2-row1	0.95501	0.627
Var 12h NI row2-row1	1.01679	1
Var 36h I row2-row1	0.99738	1
Var 36h NI row2-row1	1.07583	1
Var 60h I row2-row1	0.88763	0.582
Var 60h NI row2-row1	1.58733	0.904
Time course 0hI-0hNI	1.05765	0.799
Time course 12hI-12hNI	0.99364	0.968
Time course 36hI-36hNI	0.92284	0.169
Time course 60hI-60hNI	0.7064	0.006

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)	1.03679	0.748
transgenic ySAMdc/azygous control (breaker)	0.92983	1
transgenic ySAMdc/azygous control (red)	0.93163	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89933	0.085

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.18738	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09484	1
Manapal/WT (break)	1.23444	0.381
Manapal/WT (red)	1.09546	1