Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.19.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19495	0.602
27DAP/17DAP	0.98365	0.939
39DAP/27DAP	0.82092	0.474
41DAP/39DAP	0.86416	0.527
42DAP/41DAP	1.39875	0.582
43DAP/42DAP	1.2684	0.956
47DAP/43DAP	1.21353	0.659
52DAP/47DAP	0.84457	0.574
57DAP/52DAP	1.1497	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20273	0.071
17DAP/reference	0.99926	0.957
27DAP/reference	1.13278	0.468
39DAP/reference	1.00937	0.903
41DAP/reference	1.14	0.111
42DAP/reference	1.21867	0.006
43DAP/reference	0.95569	0.576
47DAP/reference	1.12465	0.06
52DAP/reference	1.33379	0.01
57DAP/reference	1.10318	0.662

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28517	0.068
27DAP/17DAP	0.91373	0.446
39DAP/27DAP	1.00107	1
41DAP/39DAP	0.91675	0.228
42DAP/41DAP	1.04079	0.852
43DAP/42DAP	1.08968	0.112
47DAP/43DAP	1.02904	0.88
52DAP/47DAP	1.01199	0.991
57DAP/52DAP	1.00074	0.892
57DAP/7DAP	1.31793	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86038	0.104
17DAP/reference	0.8844	0.018
27DAP/reference	0.81906	0.011
39DAP/reference	0.87809	0.012
41DAP/reference	1.12998	0.637
42DAP/reference	0.88158	0.013
43DAP/reference	0.84194	0.011
47DAP/reference	1.13042	0.561
52DAP/reference	0.86146	0.012
57DAP/reference	0.853	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95378	0.58
17DAP/reference	1.1547	0.25
27DAP/reference	1.27711	0.087
39DAP/reference	1.29293	0.034
41DAP/reference	1.50246	0.006
42DAP/reference	1.44288	0.007
43DAP/reference	1.11763	0.728
47DAP/reference	1.20708	0.012
52DAP/reference	1.23913	0.057
57DAP/reference	1.10347	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84429	0.04
17DAP/reference	0.97118	0.601
27DAP/reference	1.01012	0.805
39DAP/reference	0.89595	0.029
41DAP/reference	1.05196	1
42DAP/reference	0.94881	0.552
43DAP/reference	1.10167	0.599
47DAP/reference	1.17875	0.309
52DAP/reference	0.84439	0.177
57DAP/reference	1.43754	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9462	1
26DAP/20DAP	0.95221	1
34DAP/26DAP	1.01635	1
51DAP/34DAP	1.05038	0.73
52DAP/51DAP	1.11238	0.225
53DAP/52DAP	1.14968	0.537
55DAP/53DAP	1.05729	0.813
57DAP/55DAP	1.2082	0.525
62DAP/57DAP	1.18983	0.868
68DAP/62DAP	0.67888	0.126
68DAP/14DAP	0.82304	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96862	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.64354	0.07
Immature Eggplant/Mature Eggplant	1.09397
Ripe Pepper/Ripe Tomato	0.69004
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.54955
12-2/M82	0.95059
12-4/M82	N/A	N/A
1-3/M82	0.78879
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97794	1
IL2-6/WTpooled	1.33225
IL7-5/WTpooled	1.06006	1
IL7-3/WTpooled	0.9721	1
IL12-4/WTpooled	0.81495	0.554
IL1-4/WTpooled	1.1108	1
WT/WTpooled	1.0688	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	1.02337	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93801	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.16554	1
DC3000/delta hrp 24h	1.14176	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.37595	0.25
DC3000 delta B/DC3000 delta AB	0.94467	0.589

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82958	1
Exp 36h	1.1817	1
Exp 60h	0.98183	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99761	1
Var 0h	1.11224	1
Var 12h I row2-row1	0.91256	0.77
Var 12h NI row2-row1	1.16665	0.649
Var 36h I row2-row1	1.10872	1
Var 36h NI row2-row1	0.96006	0.852
Var 60h I row2-row1	0.95395	0.832
Var 60h NI row2-row1	1.04285	0.904
Time course 0hI-0hNI	1.01983	0.852
Time course 12hI-12hNI	0.98266	0.914
Time course 36hI-36hNI	1.06337	0.58
Time course 60hI-60hNI	1.24693	0.012

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)	0.71958	0.171
transgenic ySAMdc/azygous control (breaker)	0.91349	1
transgenic ySAMdc/azygous control (red)	0.99046	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06979	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9656	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99028	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.88824	0.188