Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.17.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03945	0.932
27DAP/17DAP	1.19057	0.859
39DAP/27DAP	0.80007	0.512
41DAP/39DAP	1.32984	0.722
42DAP/41DAP	0.75349	0.774
43DAP/42DAP	1.107	0.945
47DAP/43DAP	0.85538	0.499
52DAP/47DAP	1.80949	0.509
57DAP/52DAP	1.05699	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03381	0.46
17DAP/reference	0.98546	0.701
27DAP/reference	0.99277	0.763
39DAP/reference	0.99639	0.975
41DAP/reference	1.0431	0.587
42DAP/reference	1.08757	0.003
43DAP/reference	1.00508	0.957
47DAP/reference	1.06414	0.05
52DAP/reference	1.04226	0.663
57DAP/reference	1.05341	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86844	0.153
27DAP/17DAP	0.8994	0.259
39DAP/27DAP	1.22019	0.347
41DAP/39DAP	0.74923	0.288
42DAP/41DAP	1.29257	0.582
43DAP/42DAP	1.08161	0.478
47DAP/43DAP	0.96261	0.833
52DAP/47DAP	1.02489	1
57DAP/52DAP	0.9517	0.657
57DAP/7DAP	0.9281	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8983	0.088
17DAP/reference	0.8251	0.012
27DAP/reference	0.75323	0.01
39DAP/reference	0.81812	0.011
41DAP/reference	0.8016	0.016
42DAP/reference	0.73108	0.011
43DAP/reference	0.74231	0.013
47DAP/reference	0.80263	0.168
52DAP/reference	0.70374	0.019
57DAP/reference	0.93737	0.162

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97286	0.58
17DAP/reference	1.02802	0.674
27DAP/reference	0.98781	0.598
39DAP/reference	0.98744	0.485
41DAP/reference	0.97803	0.459
42DAP/reference	0.9998	0.655
43DAP/reference	1.05161	0.466
47DAP/reference	1.03808	0.232
52DAP/reference	0.99519	0.666
57DAP/reference	1.00019	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77621	0.052
17DAP/reference	0.94065	0.328
27DAP/reference	0.81187	0.044
39DAP/reference	0.76853	0.021
41DAP/reference	0.8174	0.031
42DAP/reference	0.82653	0.071
43DAP/reference	0.89244	0.095
47DAP/reference	1.01636	0.82
52DAP/reference	0.76277	0.145
57DAP/reference	0.96136	0.509

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05754	0.735
26DAP/20DAP	0.82963	0.317
34DAP/26DAP	1.10432	1
51DAP/34DAP	0.75747	0.07
52DAP/51DAP	0.96236	1
53DAP/52DAP	0.95739	0.776
55DAP/53DAP	1.04587	0.893
57DAP/55DAP	1.03566	0.906
62DAP/57DAP	0.83352	0.28
68DAP/62DAP	0.80714	0.314
68DAP/14DAP	0.97189	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75763	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.26961	0.176
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.63283	0.05
Ripe Pepper/Ripe Tomato	0.73948	0.293
Mature Eggplant/Ripe Tomato	0.82463	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06396	0.877
1-1-2/M82	0.87407	0.958
12-2/M82	0.96792	0.955
12-4/M82	1.04241	1
1-3/M82	0.89304	0.501
2-1-1/M82	0.95002	0.784
2-1/M82	1.085
2-6/M82	0.96729	1
3-2/M82	N/A	N/A
4-1-1/M82	0.9196	0.926
4-1/M82	0.89376
4-3-2/M82	1.08066
4-3/M82	0.97454	1
5-3/M82	1.06941	1
6-2/M82	1.00038	1
6-3/M82	1.00448	1
7-1/M82	1.03375	0.598
7-2/M82	0.99542	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.56322	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	2.35929	1
IL12-4/WTpooled	1.20091	0.624
IL1-4/WTpooled	0.95403	1
WT/WTpooled	0.92608	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	2.01385	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93779	0.868
DC3000/delta hrp 6h	1.30823	1
DC3000/delta hrp 12h	0.89234	1
DC3000/delta hrp 24h	1.04394	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04938
DC3000 delta B/DC3000 delta AB	0.90881	0.369

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09662	1
Exp 36h	1.79747	0.489
Exp 60h	1.20349	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.8184	1
Var 0h	0.46304	1
Var 12h I row2-row1	0.96038	0.948
Var 12h NI row2-row1	0.84621	0.488
Var 36h I row2-row1	0.67259	0.575
Var 36h NI row2-row1	0.92811	0.743
Var 60h I row2-row1	0.89407	0.952
Var 60h NI row2-row1	1.27071	0.904
Time course 0hI-0hNI	1.12913	0.852
Time course 12hI-12hNI	1.07808	0.747
Time course 36hI-36hNI	1.02673	0.975
Time course 60hI-60hNI	1.1272	0.216

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)	1.03658	0.272
transgenic ySAMdc/azygous control (breaker)	1.12247	1
transgenic ySAMdc/azygous control (red)	1.13271	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75368	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05409	0.14
Manapal/WT (break)	0.95141	1
Manapal/WT (red)	1.1822	0.413