Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.16.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83228	0.253
27DAP/17DAP	1.13974	1
39DAP/27DAP	1.21503	0.449
41DAP/39DAP	0.82516	0.358
42DAP/41DAP	0.90604	1
43DAP/42DAP	1.0374	1
47DAP/43DAP	0.86312	0.517
52DAP/47DAP	1.33259	0.468
57DAP/52DAP	0.94151	0.932

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94626	0.293
17DAP/reference	0.92744	0.18
27DAP/reference	0.98863	0.725
39DAP/reference	0.95437	0.446
41DAP/reference	0.94577	0.341
42DAP/reference	0.93869	0.046
43DAP/reference	1.01923	0.866
47DAP/reference	0.94424	0.083
52DAP/reference	1.00762	1
57DAP/reference	0.96306	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89746	0.289
27DAP/17DAP	1.07942	0.822
39DAP/27DAP	1.17572	0.46
41DAP/39DAP	1.03922	1
42DAP/41DAP	1.06408	0.852
43DAP/42DAP	1.08497	0.513
47DAP/43DAP	1.01757	1
52DAP/47DAP	0.96073	0.857
57DAP/52DAP	1.00793	1
57DAP/7DAP	1.06604	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95047	0.27
17DAP/reference	0.93717	0.018
27DAP/reference	0.93962	0.019
39DAP/reference	0.9193	0.031
41DAP/reference	0.87648	0.024
42DAP/reference	0.88239	0.06
43DAP/reference	0.89919	0.069
47DAP/reference	0.93538	0.293
52DAP/reference	0.87229	0.066
57DAP/reference	0.88321	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9388	0.318
17DAP/reference	0.9742	0.422
27DAP/reference	0.95388	0.352
39DAP/reference	0.85329	0.087
41DAP/reference	0.92643	0.145
42DAP/reference	0.89873	0.037
43DAP/reference	0.98581	0.692
47DAP/reference	0.88512	0.013
52DAP/reference	0.92762	0.078
57DAP/reference	0.88231	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93315	0.057
17DAP/reference	1.00363	1
27DAP/reference	0.92992	0.102
39DAP/reference	0.91391	0.043
41DAP/reference	0.90466	0.032
42DAP/reference	0.99578	0.816
43DAP/reference	0.96596	0.256
47DAP/reference	1.07049	0.099
52DAP/reference	0.99174	0.838
57DAP/reference	1.15546	0.218

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99776	1
26DAP/20DAP	0.89033	0.512
34DAP/26DAP	1.13053	0.819
51DAP/34DAP	0.98208	0.863
52DAP/51DAP	1.02616	0.783
53DAP/52DAP	0.99418	0.99
55DAP/53DAP	1.02529	0.964
57DAP/55DAP	0.92326	0.698
62DAP/57DAP	1.17582	0.678
68DAP/62DAP	0.88525	0.464
68DAP/14DAP	1.55388	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92539	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15431
Mature Green Tomato/Ripe Tomato	1.55166	0.023
Immature Eggplant/Mature Eggplant	0.81408	0.125
Ripe Pepper/Ripe Tomato	0.3691	0.293
Mature Eggplant/Ripe Tomato	3.96105	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04388	1
1-1-2/M82	1.03181	1
12-2/M82	1.08318	1
12-4/M82	0.83662	0.619
1-3/M82	0.93034	1
2-1-1/M82	1.21518	0.764
2-1/M82	1.56718
2-6/M82	1.05358	0.695
3-2/M82	0.90649	1
4-1-1/M82	1.0915	1
4-1/M82	0.9335	1
4-3-2/M82	1.1069	1
4-3/M82	0.95443
5-3/M82	1.02928	1
6-2/M82	0.97584	1
6-3/M82	0.97859	1
7-1/M82	0.86591
7-2/M82	0.96296	1
9-3-2/M82	1.19652	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81511	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.88196
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.47939
IL1-4/WTpooled	1.18778
WT/WTpooled	1.08812	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	1.06744	0.894
DC3000/delta hrp 6h	1.12436	1
DC3000/delta hrp 12h	0.97497	1
DC3000/delta hrp 24h	0.99408	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75059
DC3000 delta B/DC3000 delta AB	0.98229	0.936

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98389	1
Exp 36h	1.25049	1
Exp 60h	1.03521	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95591	1
Var 0h	0.88017	0.933
Var 12h I row2-row1	1.06106	0.506
Var 12h NI row2-row1	0.86796	0.394
Var 36h I row2-row1	0.9892	1
Var 36h NI row2-row1	0.88421	0.645
Var 60h I row2-row1	1.33649	0.562
Var 60h NI row2-row1	1.22692	0.904
Time course 0hI-0hNI	1.14614	0.603
Time course 12hI-12hNI	0.97495	0.836
Time course 36hI-36hNI	0.91644	0.171
Time course 60hI-60hNI	1.16764	0.08

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)	1.02545	0.921
transgenic ySAMdc/azygous control (breaker)	0.54544	0.131
transgenic ySAMdc/azygous control (red)	1.14617	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00135	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61291	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.5589	0.172
Manapal/WT (break)	0.74243	0.333
Manapal/WT (red)	0.59472	0.181