Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10393	0.951
27DAP/17DAP	1.06984	1
39DAP/27DAP	1.7002	0.242
41DAP/39DAP	1.05695	0.985
42DAP/41DAP	1.00081	1
43DAP/42DAP	0.90295	0.841
47DAP/43DAP	1.39491	0.618
52DAP/47DAP	1.01871	0.938
57DAP/52DAP	1.26851	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92704	0.293
17DAP/reference	1.03329	0.342
27DAP/reference	0.98202	0.61
39DAP/reference	0.95813	0.306
41DAP/reference	1.09389	0.312
42DAP/reference	0.86016	0.004
43DAP/reference	0.9872	0.763
47DAP/reference	0.91642	0.025
52DAP/reference	0.83714	0.024
57DAP/reference	0.88117	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18241	0.797
27DAP/17DAP	1.55444	0.747
39DAP/27DAP	1.24092	0.383
41DAP/39DAP	0.87495	0.121
42DAP/41DAP	1.15647	0.904
43DAP/42DAP	0.79323	0.149
47DAP/43DAP	0.93159	0.796
52DAP/47DAP	1.37073	0.348
57DAP/52DAP	1.07675	0.688
57DAP/7DAP	1.06832

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88781	0.122
17DAP/reference	0.9677	0.253
27DAP/reference	0.93168	0.019
39DAP/reference	0.96433	0.039
41DAP/reference	1.00687	1
42DAP/reference	0.95219	0.123
43DAP/reference	0.93918	0.183
47DAP/reference	0.78962	0.066
52DAP/reference	0.96153	0.232
57DAP/reference	0.84645	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93583	0.412
17DAP/reference	0.90851	0.099
27DAP/reference	0.86049	0.119
39DAP/reference	0.80496	0.031
41DAP/reference	0.84887	0.096
42DAP/reference	0.9541	0.392
43DAP/reference	0.92011	0.269
47DAP/reference	0.99096	0.609
52DAP/reference	0.86504	0.004
57DAP/reference	0.97331	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86418	0.049
17DAP/reference	0.91624	0.348
27DAP/reference	0.9564	0.49
39DAP/reference	0.91347	0.012
41DAP/reference	0.97035	0.56
42DAP/reference	0.8217	0.087
43DAP/reference	0.85696	0.095
47DAP/reference	0.76325	0.025
52DAP/reference	0.79287	0.142
57DAP/reference	0.75328	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03722	0.966
26DAP/20DAP	0.88921	0.512
34DAP/26DAP	1.36702	0.304
51DAP/34DAP	1.15292	0.082
52DAP/51DAP	0.82823	0.045
53DAP/52DAP	1.04915	1
55DAP/53DAP	1.33577	0.755
57DAP/55DAP	0.80707	0.256
62DAP/57DAP	0.89603	0.466
68DAP/62DAP	1.01865	0.914
68DAP/14DAP	0.8151	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68858	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.47366	0.017
Immature Eggplant/Mature Eggplant	3.75425
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9347	0.944
1-1-2/M82	0.93028	1
12-2/M82	0.91107
12-4/M82	0.94552
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	1.11838	0.345
3-2/M82	N/A	N/A
4-1-1/M82	1.09237
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.92219	1
6-2/M82	0.98688	1
6-3/M82	0.7826
7-1/M82	N/A	N/A
7-2/M82	0.82637	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.60132	0.321
IL2-6/WTpooled	0.9055	1
IL7-5/WTpooled	1.15499	0.792
IL7-3/WTpooled	0.61408	0.418
IL12-4/WTpooled	0.88818	0.566
IL1-4/WTpooled	1.03908	1
WT/WTpooled	0.9395	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	0.92178

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10986	0.921
DC3000/delta hrp 6h	1.3875
DC3000/delta hrp 12h	1.02754	1
DC3000/delta hrp 24h	1.13625	0.397

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	N/A	N/A

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04307
Var 0h	0.889	0.933
Var 12h I row2-row1	1.09539	0.187
Var 12h NI row2-row1	0.91726	0.494
Var 36h I row2-row1	1.1917	0.489
Var 36h NI row2-row1	0.93045	0.791
Var 60h I row2-row1	0.89016	0.285
Var 60h NI row2-row1	0.68215	1
Time course 0hI-0hNI	1.20517	0.719
Time course 12hI-12hNI	1.61331	0.493
Time course 36hI-36hNI	1.19898	0.056
Time course 60hI-60hNI	1.7932	0.042

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)	2.15037	0.331
transgenic ySAMdc/azygous control (breaker)	3.94449	1
transgenic ySAMdc/azygous control (red)	1.85149	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91651	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05342	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.06559	1