Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.16.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44039	0.085
27DAP/17DAP	1.1457	1
39DAP/27DAP	1.31836	0.229
41DAP/39DAP	0.87258	0.496
42DAP/41DAP	1.42362	0.712
43DAP/42DAP	1.24228	0.976
47DAP/43DAP	0.89484	0.603
52DAP/47DAP	1.17014	0.696
57DAP/52DAP	0.91383	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20602	0.013
17DAP/reference	0.9731	0.448
27DAP/reference	0.91795	0.187
39DAP/reference	0.9864	0.797
41DAP/reference	0.96195	0.542
42DAP/reference	0.87377	0.001
43DAP/reference	0.97488	0.611
47DAP/reference	0.92531	0.038
52DAP/reference	0.86266	0.016
57DAP/reference	0.86437	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.07223	0.024
27DAP/17DAP	0.98524	0.919
39DAP/27DAP	1.06665	0.496
41DAP/39DAP	1.03736	1
42DAP/41DAP	0.84902	0.256
43DAP/42DAP	0.98137	0.875
47DAP/43DAP	0.96437	0.757
52DAP/47DAP	1.03597	0.945
57DAP/52DAP	1.05504	0.978
57DAP/7DAP	0.20371	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.5056	0.393
17DAP/reference	0.91337	0.035
27DAP/reference	0.84533	0.012
39DAP/reference	0.93532	0.034
41DAP/reference	0.85042	0.056
42DAP/reference	0.85575	0.023
43DAP/reference	0.84496	0.01
47DAP/reference	0.66397	0.044
52DAP/reference	0.7534	0.01
57DAP/reference	0.87036	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34757	0.164
17DAP/reference	0.81	0.02
27DAP/reference	0.78982	0.041
39DAP/reference	0.69066	0.009
41DAP/reference	0.7955	0.07
42DAP/reference	0.77363	0.098
43DAP/reference	0.88802	0.186
47DAP/reference	0.85265	0.011
52DAP/reference	0.7136	0.004
57DAP/reference	0.77725	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91224	0.335
17DAP/reference	0.83155	0.186
27DAP/reference	0.83794	0.03
39DAP/reference	0.83648	0.008
41DAP/reference	0.8138	0.096
42DAP/reference	0.78324	0.036
43DAP/reference	0.75335	0.024
47DAP/reference	0.71238	0.005
52DAP/reference	0.69131	0.073
57DAP/reference	0.59212	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01518	0.966
26DAP/20DAP	0.90139	1
34DAP/26DAP	0.77764	0.561
51DAP/34DAP	0.96217	0.727
52DAP/51DAP	1.12065	1
53DAP/52DAP	1.0994	0.797
55DAP/53DAP	1.08217	0.781
57DAP/55DAP	1.0179	1
62DAP/57DAP	0.90522	0.681
68DAP/62DAP	0.90363	0.769
68DAP/14DAP	1.09858	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86584	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4599	0.164
Mature Green Tomato/Ripe Tomato	0.83582
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.00929	1
Mature Eggplant/Ripe Tomato	0.73944	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99013	0.961
1-1-2/M82	1.06622	1
12-2/M82	1.72742
12-4/M82	1.16543	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	0.74682	1
3-2/M82	1.01895
4-1-1/M82	1.39847
4-1/M82	1.54965	0.853
4-3-2/M82	1.1428	0.232
4-3/M82	0.64514	0.611
5-3/M82	1.02568	1
6-2/M82	0.57814	0.481
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.76052	0.796
9-3-2/M82	0.92706	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.3147	0.493
IL2-6/WTpooled	1.03889	0.584
IL7-5/WTpooled	1.38184
IL7-3/WTpooled	0.91509	0.418
IL12-4/WTpooled	1.08166	0.839
IL1-4/WTpooled	1.14366
WT/WTpooled	1.00194	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	1.54867	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01034	1
DC3000/delta hrp 6h	1.02565	1
DC3000/delta hrp 12h	1.01165	1
DC3000/delta hrp 24h	1.06431	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	6.75653
DC3000 delta B/DC3000 delta AB	1.322

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05043	0.254
Exp 36h	1.01587	1
Exp 60h	1.24749	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01694	1
Var 0h	0.82057	0.244
Var 12h I row2-row1	1.68223	0.348
Var 12h NI row2-row1	0.9014	0.627
Var 36h I row2-row1	1.03401	0.908
Var 36h NI row2-row1	1.13177	1
Var 60h I row2-row1	0.94052	0.832
Var 60h NI row2-row1	1.15131	0.904
Time course 0hI-0hNI	0.7794	0.106
Time course 12hI-12hNI	0.89529	0.562
Time course 36hI-36hNI	1.04703	0.569
Time course 60hI-60hNI	1.17132	0.096

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)	1.03718	0.36
transgenic ySAMdc/azygous control (breaker)	1.11872	0.248
transgenic ySAMdc/azygous control (red)	0.94371	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98614	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87544	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90635	1
Manapal/WT (break)	0.73129	0.255
Manapal/WT (red)	1.1027	0.222