Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.40465	0.244
27DAP/17DAP	1.32206	0.693
39DAP/27DAP	2.45887	0.022
41DAP/39DAP	1.31768	0.516
42DAP/41DAP	1.41132	0.311
43DAP/42DAP	1.56974	0.269
47DAP/43DAP	3.09215	0.187
52DAP/47DAP	0.84294	0.595
57DAP/52DAP	1.54435	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59148	0.031
17DAP/reference	0.55039	0.007
27DAP/reference	0.83212	0.208
39DAP/reference	0.95368	0.587
41DAP/reference	0.75355	0.012
42DAP/reference	1.07117	0.241
43DAP/reference	1.78295	0.007
47DAP/reference	2.6264	0.001
52DAP/reference	2.42382	0.007
57DAP/reference	1.95447	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44556	0.164
27DAP/17DAP	0.95037	0.878
39DAP/27DAP	1.8803	0.038
41DAP/39DAP	0.68641	0.053
42DAP/41DAP	1.84228	0.002
43DAP/42DAP	2.23343	0.014
47DAP/43DAP	1.54347	0.012
52DAP/47DAP	0.81083	0.222
57DAP/52DAP	0.98092	0.756
57DAP/7DAP	2.77173	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50533	0.039
17DAP/reference	0.51499	0.011
27DAP/reference	0.74462	0.01
39DAP/reference	0.72511	0.012
41DAP/reference	0.68298	0.018
42DAP/reference	0.68778	0.01
43DAP/reference	0.81733	0.016
47DAP/reference	0.95205	0.383
52DAP/reference	0.80364	0.014
57DAP/reference	0.68685	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.46775	0.007
17DAP/reference	0.43481	0.003
27DAP/reference	0.62482	0.007
39DAP/reference	0.73585	0.024
41DAP/reference	0.673	0.03
42DAP/reference	0.75721	0.027
43DAP/reference	0.61127	0.009
47DAP/reference	0.87994	0.173
52DAP/reference	0.61499	0.004
57DAP/reference	0.67927	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.43276	0.019
17DAP/reference	0.65631	0.132
27DAP/reference	0.59377	0.031
39DAP/reference	0.71147	0.007
41DAP/reference	0.79012	0.019
42DAP/reference	1.22239	0.036
43DAP/reference	1.93622	0.006
47DAP/reference	2.79279	0.005
52DAP/reference	3.02795	0.027
57DAP/reference	2.92667	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21194	0.496
26DAP/20DAP	0.65768	0.317
34DAP/26DAP	1.69506	0.542
51DAP/34DAP	2.93429	0.026
52DAP/51DAP	0.62225	0.07
53DAP/52DAP	4.32691	0.02
55DAP/53DAP	1.0844	0.477
57DAP/55DAP	0.95414	0.67
62DAP/57DAP	0.58318	0.028
68DAP/62DAP	1.50715	0.148
68DAP/14DAP	3.79184	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.67577	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.27857	0.068
Mature Green Tomato/Ripe Tomato	0.11394	0.017
Immature Eggplant/Mature Eggplant	0.88091	0.329
Ripe Pepper/Ripe Tomato	0.50104	0.224
Mature Eggplant/Ripe Tomato	0.11456	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11269	0.742
1-1-2/M82	1.19922	1
12-2/M82	0.8885	0.727
12-4/M82	1.8188	1
1-3/M82	2.09323	0.26
2-1-1/M82	1.09669	1
2-1/M82	0.92736	0.519
2-6/M82	1.21765	0.405
3-2/M82	1.08773	0.84
4-1-1/M82	1.17477	1
4-1/M82	1.64093	1
4-3-2/M82	1.28012	0.262
4-3/M82	1.02266	1
5-3/M82	0.9793	1
6-2/M82	0.29618	0.473
6-3/M82	1.02248	1
7-1/M82	1.04126	1
7-2/M82	1.48689	1
9-3-2/M82	1.52174	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.58592	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12185	0.921
DC3000/delta hrp 6h	1.46127
DC3000/delta hrp 12h	0.61186	1
DC3000/delta hrp 24h	1.23781	0.243

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	1.1567	1
Exp 36h	N/A	N/A
Exp 60h	1.38986	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98161	1
Var 0h	5.65709	0.936
Var 12h I row2-row1	1.17703	0.613
Var 12h NI row2-row1	1.06334	1
Var 36h I row2-row1	1.47154	0.489
Var 36h NI row2-row1	1.40175
Var 60h I row2-row1	1.31587	0.562
Var 60h NI row2-row1	0.79288	0.818
Time course 0hI-0hNI	1.07318	0.985
Time course 12hI-12hNI	1.04123	0.868
Time course 36hI-36hNI	2.28781	0.006
Time course 60hI-60hNI	2.95729	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)	0.99257	0.931
transgenic ySAMdc/azygous control (breaker)	0.75817	0.139
transgenic ySAMdc/azygous control (red)	1.10543	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03058	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.3703	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01265	1
Manapal/WT (break)	1.16627	0.381
Manapal/WT (red)	1.16774	0.413