Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.4.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14632	0.656
27DAP/17DAP	0.68695	0.149
39DAP/27DAP	0.73166	0.352
41DAP/39DAP	1.24278	0.56
42DAP/41DAP	0.86356	1
43DAP/42DAP	0.94228	0.827
47DAP/43DAP	0.87804	0.64
52DAP/47DAP	1.57776	0.228
57DAP/52DAP	0.99922	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94791	0.217
17DAP/reference	0.89231	0.111
27DAP/reference	0.90327	0.095
39DAP/reference	0.96714	0.455
41DAP/reference	0.88832	0.049
42DAP/reference	0.98045	0.169
43DAP/reference	0.9764	0.48
47DAP/reference	0.95977	0.098
52DAP/reference	0.88364	0.021
57DAP/reference	0.84984	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21935	0.074
27DAP/17DAP	0.94519	0.169
39DAP/27DAP	0.89642	0.218
41DAP/39DAP	1.03256	0.861
42DAP/41DAP	0.97512	0.746
43DAP/42DAP	0.94725	0.522
47DAP/43DAP	0.99361	0.983
52DAP/47DAP	0.99998	0.982
57DAP/52DAP	0.98269	0.753
57DAP/7DAP	1.03238	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09863	0.274
17DAP/reference	0.92588	0.014
27DAP/reference	0.80902	0.01
39DAP/reference	0.82258	0.011
41DAP/reference	0.74808	0.009
42DAP/reference	0.807	0.01
43DAP/reference	0.74039	0.01
47DAP/reference	0.74075	0.036
52DAP/reference	0.7409	0.01
57DAP/reference	0.75873	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89573	0.231
17DAP/reference	0.88276	0.129
27DAP/reference	1.06031	0.639
39DAP/reference	0.78656	0.083
41DAP/reference	0.95041	0.137
42DAP/reference	0.91713	0.081
43DAP/reference	0.83219	0.06
47DAP/reference	0.89036	0.012
52DAP/reference	0.82277	0.004
57DAP/reference	0.78158	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70033	0.017
17DAP/reference	1.30992	0.241
27DAP/reference	1.19821	0.044
39DAP/reference	1.08446	0.175
41DAP/reference	0.90513	0.033
42DAP/reference	1.13066	0.671
43DAP/reference	0.86394	0.084
47DAP/reference	0.7966	0.005
52DAP/reference	0.7214	0.05
57DAP/reference	0.98654	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9901	1
26DAP/20DAP	1.07174	0.875
34DAP/26DAP	0.87045	0.28
51DAP/34DAP	0.85668	0.158
52DAP/51DAP	1.03399	0.776
53DAP/52DAP	0.95006	0.797
55DAP/53DAP	0.93663	0.686
57DAP/55DAP	0.99365	0.944
62DAP/57DAP	0.82568	0.681
68DAP/62DAP	1.00106	1
68DAP/14DAP	1.2142	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89846	0.129

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.19464	0.058
Mature Green Tomato/Ripe Tomato	1.42689	0.086
Immature Eggplant/Mature Eggplant	0.50451	0.062
Ripe Pepper/Ripe Tomato	9.54883	1
Mature Eggplant/Ripe Tomato	17.3861	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03003	1
1-1-2/M82	0.82354	1
12-2/M82	1.24202	0.519
12-4/M82	1.0329	1
1-3/M82	0.95639	0.501
2-1-1/M82	1.03437	0.764
2-1/M82	0.99723
2-6/M82	0.97572	1
3-2/M82	0.942	0.752
4-1-1/M82	0.87579	1
4-1/M82	0.89833	1
4-3-2/M82	0.85227	1
4-3/M82	0.81734
5-3/M82	1.00964	1
6-2/M82	0.98634	1
6-3/M82	0.96119	1
7-1/M82	1.04785	1
7-2/M82	0.99514	1
9-3-2/M82	0.83846	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88642	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.213	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.98925
WT/WTpooled	1.3639

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	1.09904	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9548	1
DC3000/delta hrp 6h	0.9703	0.95
DC3000/delta hrp 12h	1.05228	1
DC3000/delta hrp 24h	0.85497	0.269

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	0.50765	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03892	1
Exp 36h	0.98778	1
Exp 60h	0.97165	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.05895	0.936
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.10987	0.798
transgenic ySAMdc/azygous control (breaker)	1.5244	0.178
transgenic ySAMdc/azygous control (red)	1.1204	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83019	0.078

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.89733	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	15.7587	0.083
Manapal/WT (break)	7.01608	0.123
Manapal/WT (red)	2.13968	0.413