Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.15.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.711	0.085
27DAP/17DAP	1.65829	0.588
39DAP/27DAP	0.88844	0.583
41DAP/39DAP	1.40412	0.209
42DAP/41DAP	1.04425	0.937
43DAP/42DAP	0.92909	0.851
47DAP/43DAP	1.02464	0.999
52DAP/47DAP	1.1982	0.584
57DAP/52DAP	1.01469	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95709	0.205
17DAP/reference	1.04997	0.161
27DAP/reference	1.01663	0.759
39DAP/reference	1.03811	0.386
41DAP/reference	1.01028	0.855
42DAP/reference	1.07234	0.108
43DAP/reference	0.9648	0.48
47DAP/reference	0.98562	0.392
52DAP/reference	0.98539	0.564
57DAP/reference	0.9099	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91514	0.228
27DAP/17DAP	1.00094	1
39DAP/27DAP	1.02142	0.691
41DAP/39DAP	1.11716	0.682
42DAP/41DAP	0.92925	0.3
43DAP/42DAP	0.97829	0.503
47DAP/43DAP	1.02421	0.827
52DAP/47DAP	1.15012	0.478
57DAP/52DAP	1.30952	0.099
57DAP/7DAP	1.2001	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90857	0.224
17DAP/reference	0.93896	0.094
27DAP/reference	0.74401	0.01
39DAP/reference	0.94245	0.23
41DAP/reference	0.97661	0.469
42DAP/reference	0.92296	0.211
43DAP/reference	1.24044	0.048
47DAP/reference	0.84789	0.057
52DAP/reference	0.86371	0.021
57DAP/reference	1.36682	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9929	0.869
17DAP/reference	1.00867	0.961
27DAP/reference	0.90867	0.155
39DAP/reference	0.94732	0.25
41DAP/reference	1.20921	0.045
42DAP/reference	0.97861	0.355
43DAP/reference	1.05923	0.617
47DAP/reference	1.11025	0.033
52DAP/reference	1.00453	1
57DAP/reference	1.01387	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8671	0.183
17DAP/reference	0.96089	0.579
27DAP/reference	0.95505	0.357
39DAP/reference	0.86698	0.028
41DAP/reference	0.8518	0.07
42DAP/reference	0.77933	0.049
43DAP/reference	0.93999	0.449
47DAP/reference	0.99336	0.646
52DAP/reference	0.80832	0.25
57DAP/reference	1.14762	0.126

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99132	1
26DAP/20DAP	0.95531	1
34DAP/26DAP	1.00088	1
51DAP/34DAP	0.98695	0.883
52DAP/51DAP	1.0087	0.954
53DAP/52DAP	0.96482	0.83
55DAP/53DAP	0.96694	0.775
57DAP/55DAP	1.13189	0.643
62DAP/57DAP	1.05088	0.868
68DAP/62DAP	1.1017	0.821
68DAP/14DAP	1.30162	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17236	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.45692	0.018
Immature Eggplant/Mature Eggplant	0.61195	0.064
Ripe Pepper/Ripe Tomato	0.10682	0.224
Mature Eggplant/Ripe Tomato	0.47613	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02713	1
1-1-2/M82	0.89708	1
12-2/M82	0.97314	0.955
12-4/M82	0.95878	1
1-3/M82	0.91812	0.378
2-1-1/M82	1.19352	1
2-1/M82	1.2332
2-6/M82	0.93271	1
3-2/M82	0.93294	1
4-1-1/M82	0.97959	1
4-1/M82	1.03619	1
4-3-2/M82	1.04687	1
4-3/M82	0.99303	1
5-3/M82	1.02641	1
6-2/M82	1.04469	1
6-3/M82	1.04948	1
7-1/M82	0.93345	0.476
7-2/M82	1.0852	1
9-3-2/M82	0.77035	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17835
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.98011
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.28332	0.516
IL1-4/WTpooled	0.9387	1
WT/WTpooled	0.92556	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00968	1
DC3000/delta hrp 6h	1.14431	1
DC3000/delta hrp 12h	1.13153	1
DC3000/delta hrp 24h	1.03366	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12007	0.042
DC3000 delta B/DC3000 delta AB	1.09625	0.394

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87838	1
Exp 36h	N/A	N/A
Exp 60h	0.92738	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03837	1
Var 0h	1.00439	1
Var 12h I row2-row1	1.19434	0.272
Var 12h NI row2-row1	0.9871	1
Var 36h I row2-row1	0.94019	1
Var 36h NI row2-row1	0.8979	0.584
Var 60h I row2-row1	1.0823	1
Var 60h NI row2-row1	1.03328	1
Time course 0hI-0hNI	1.12028	0.662
Time course 12hI-12hNI	1.02441	0.842
Time course 36hI-36hNI	1.03069	0.513
Time course 60hI-60hNI	1.6193	0.008

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)	1.79218	0.541
transgenic ySAMdc/azygous control (breaker)	0.2904	0.15
transgenic ySAMdc/azygous control (red)	1.61419	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96214	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.31962	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84071	1
Manapal/WT (break)	0.60739	1
Manapal/WT (red)	0.97842	0.863