Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.14.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87027	0.445
27DAP/17DAP	1.54256	0.622
39DAP/27DAP	1.08613	0.985
41DAP/39DAP	1.15235	0.473
42DAP/41DAP	1.08202	0.967
43DAP/42DAP	1.38497	0.949
47DAP/43DAP	1.25622	0.459
52DAP/47DAP	0.91212	0.736
57DAP/52DAP	0.99554	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19518	0.188
17DAP/reference	1.05449	0.442
27DAP/reference	0.98261	0.683
39DAP/reference	0.99358	0.901
41DAP/reference	1.23128	0.024
42DAP/reference	1.45539	0.007
43DAP/reference	1.0378	0.942
47DAP/reference	1.40669	0.002
52DAP/reference	1.23925	0.056
57DAP/reference	1.05899	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84876	0.245
27DAP/17DAP	0.86422	0.339
39DAP/27DAP	1.17484	0.32
41DAP/39DAP	1.02581	1
42DAP/41DAP	1.221	0.234
43DAP/42DAP	1.04706	0.478
47DAP/43DAP	1.03118	0.951
52DAP/47DAP	0.97594	0.886
57DAP/52DAP	1.29459	0.358
57DAP/7DAP	1.19708	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90628	0.27
17DAP/reference	0.87911	0.192
27DAP/reference	1.07765	0.664
39DAP/reference	0.93696	0.307
41DAP/reference	0.76815	0.049
42DAP/reference	1.08633	1
43DAP/reference	0.97533	0.48
47DAP/reference	1.10031	0.582
52DAP/reference	0.80002	0.066
57DAP/reference	0.8546	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22418	0.443
17DAP/reference	1.71867	0.045
27DAP/reference	1.39145	0.126
39DAP/reference	1.21325	0.233
41DAP/reference	1.42584	0.018
42DAP/reference	1.24059	0.157
43DAP/reference	1.23442	0.386
47DAP/reference	1.138	0.205
52DAP/reference	1.23844	0.168
57DAP/reference	1.20112	0.15

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.952	0.455
17DAP/reference	0.97607	0.636
27DAP/reference	0.8629	0.126
39DAP/reference	0.8902	0.179
41DAP/reference	0.76272	0.04
42DAP/reference	1.30218	0.114
43DAP/reference	1.25304	0.482
47DAP/reference	1.65761	0.03
52DAP/reference	1.28178	0.42
57DAP/reference	1.32578	0.428

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.84696	0.512
34DAP/26DAP	1.15057	1
51DAP/34DAP	1.89546	0.075
52DAP/51DAP	1.15619	0.888
53DAP/52DAP	1.27086	0.723
55DAP/53DAP	1.33014	0.056
57DAP/55DAP	1.02473	0.97
62DAP/57DAP	0.67878	0.28
68DAP/62DAP	0.77975	0.227
68DAP/14DAP	0.76573	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.78396	0.03

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81093	0.254
Mature Green Tomato/Ripe Tomato	0.82882	0.347
Immature Eggplant/Mature Eggplant	0.83203	0.292
Ripe Pepper/Ripe Tomato	0.60031	0.224
Mature Eggplant/Ripe Tomato	0.60428	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.25251	1
1-1-2/M82	0.98857	1
12-2/M82	0.80168
12-4/M82	0.9203	1
1-3/M82	N/A	N/A
2-1-1/M82	0.66033
2-1/M82	N/A	N/A
2-6/M82	0.97504
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.91522
4-3-2/M82	1.28086
4-3/M82	1.39455	1
5-3/M82	1.28819	0.36
6-2/M82	0.82371	0.497
6-3/M82	0.88847	1
7-1/M82	1.06935	0.992
7-2/M82	0.81971
9-3-2/M82	1.10376	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91358
IL2-6/WTpooled	1.02397	1
IL7-5/WTpooled	0.53734	1
IL7-3/WTpooled	0.92886	1
IL12-4/WTpooled	1.22557	0.546
IL1-4/WTpooled	1.03898	1
WT/WTpooled	0.96556	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	1.06365	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.25172	0.894
DC3000/delta hrp 6h	1.29236	1
DC3000/delta hrp 12h	0.9108	1
DC3000/delta hrp 24h	1.11641	0.422

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	0.92712	1
Exp 36h	N/A	N/A
Exp 60h	0.9374	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04426	1
Var 0h	0.53539	0.252
Var 12h I row2-row1	1.01497	0.736
Var 12h NI row2-row1	1.05002	1
Var 36h I row2-row1	1.06634	0.742
Var 36h NI row2-row1	0.86684	0.522
Var 60h I row2-row1	1.09573	0.502
Var 60h NI row2-row1	0.91148	0.932
Time course 0hI-0hNI	0.98192	0.95
Time course 12hI-12hNI	1.05796	0.517
Time course 36hI-36hNI	1.13192	0.08
Time course 60hI-60hNI	1.39417	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)	0.89926	0.246
transgenic ySAMdc/azygous control (breaker)	0.79005	0.173
transgenic ySAMdc/azygous control (red)	0.88259	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18686	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98316	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06241	1
Manapal/WT (break)	0.94088	1
Manapal/WT (red)	1.33134	0.222