Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.8.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09014	0.964
27DAP/17DAP	1.21743	0.804
39DAP/27DAP	1.92407	0.622
41DAP/39DAP	1.17123	0.819
42DAP/41DAP	1.08722	0.992
43DAP/42DAP	1.28684	1
47DAP/43DAP	1.31242	0.538
52DAP/47DAP	0.87783	0.623
57DAP/52DAP	1.02462	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92972	0.231
17DAP/reference	1.0384	0.492
27DAP/reference	1.01568	0.831
39DAP/reference	1.10439	0.136
41DAP/reference	1.09388	0.093
42DAP/reference	0.99005	0.455
43DAP/reference	1.06106	0.705
47DAP/reference	1.06019	0.685
52DAP/reference	1.04894	0.663
57DAP/reference	1.03074	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0414	0.797
27DAP/17DAP	1.27839	0.183
39DAP/27DAP	1.15762	0.519
41DAP/39DAP	0.7067	0.047
42DAP/41DAP	1.07318	0.935
43DAP/42DAP	1.12087	0.23
47DAP/43DAP	0.965	0.857
52DAP/47DAP	0.97915	0.913
57DAP/52DAP	1.27009	0.164
57DAP/7DAP	1.60471	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85297	0.072
17DAP/reference	0.89791	0.192
27DAP/reference	1.03839	0.551
39DAP/reference	0.95596	0.354
41DAP/reference	1.09934	0.491
42DAP/reference	1.19577	0.686
43DAP/reference	1.18745	0.307
47DAP/reference	1.17211	0.13
52DAP/reference	0.86692	0.278
57DAP/reference	1.07821	0.5

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96466	0.655
17DAP/reference	0.8404	0.039
27DAP/reference	1.00226	0.686
39DAP/reference	0.95462	0.339
41DAP/reference	0.87681	0.194
42DAP/reference	0.92704	0.212
43DAP/reference	1.13359	0.526
47DAP/reference	0.97583	0.311
52DAP/reference	0.91291	0.22
57DAP/reference	0.88094	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96383	0.489
17DAP/reference	1.0207	0.855
27DAP/reference	0.89238	0.218
39DAP/reference	0.92153	0.179
41DAP/reference	0.91706	0.119
42DAP/reference	1.08176	0.635
43DAP/reference	0.85204	0.025
47DAP/reference	1.16388	0.519
52DAP/reference	0.99767	0.8
57DAP/reference	0.95412	0.461

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11148	0.966
26DAP/20DAP	1.11793	0.941
34DAP/26DAP	1.06722	1
51DAP/34DAP	1.01891	0.962
52DAP/51DAP	0.89835	1
53DAP/52DAP	1.02364	0.99
55DAP/53DAP	0.88135	0.5
57DAP/55DAP	0.75644	0.123
62DAP/57DAP	0.70255	0.088
68DAP/62DAP	1.22887	0.047
68DAP/14DAP	1.5651	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08422	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.57679	0.017
Immature Eggplant/Mature Eggplant	4.35281
Ripe Pepper/Ripe Tomato	0.60174	0.224
Mature Eggplant/Ripe Tomato	0.66704	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00615	1
1-1-2/M82	1.11624	1
12-2/M82	1.00831	1
12-4/M82	1.38786	1
1-3/M82	2.1731
2-1-1/M82	1.38371
2-1/M82	0.86329
2-6/M82	0.88703
3-2/M82	0.8046	1
4-1-1/M82	1.17537
4-1/M82	N/A	N/A
4-3-2/M82	0.86126	1
4-3/M82	0.9771	1
5-3/M82	1.20032	1
6-2/M82	0.66843	0.497
6-3/M82	0.98801	1
7-1/M82	0.90583	1
7-2/M82	1.14595	1
9-3-2/M82	0.97316	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.33889
IL2-6/WTpooled	1.11449	0.788
IL7-5/WTpooled	1.06689
IL7-3/WTpooled	1.05317	1
IL12-4/WTpooled	0.87248	1
IL1-4/WTpooled	1.15894	0.426
WT/WTpooled	0.77077	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	1.11598	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93846	1
DC3000/delta hrp 6h	0.89402	0.95
DC3000/delta hrp 12h	0.86462	1
DC3000/delta hrp 24h	0.96271	0.761

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	1.0947	0.565

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.95713	0.879
Exp 60h	1.15736	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03269	1
Var 0h	1.11007	0.936
Var 12h I row2-row1	0.95571	0.344
Var 12h NI row2-row1	0.99749	1
Var 36h I row2-row1	0.97469	1
Var 36h NI row2-row1	0.95785	0.791
Var 60h I row2-row1	0.807	0.374
Var 60h NI row2-row1	0.90597	0.818
Time course 0hI-0hNI	0.99199	1
Time course 12hI-12hNI	1.02386	0.788
Time course 36hI-36hNI	1.17018	0.009
Time course 60hI-60hNI	0.94026	0.319

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)	1.01954	0.699
transgenic ySAMdc/azygous control (breaker)	1.32651	0.248
transgenic ySAMdc/azygous control (red)	1.03919	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09052	0.039

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64061	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94667	1
Manapal/WT (break)	1.0892	1
Manapal/WT (red)	0.9928	1