Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.4.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00895	0.867
27DAP/17DAP	0.98998	0.959
39DAP/27DAP	0.89101	0.512
41DAP/39DAP	1.29211	0.442
42DAP/41DAP	1.08488	0.933
43DAP/42DAP	0.95436	0.89
47DAP/43DAP	0.98515	0.879
52DAP/47DAP	1.22215	0.624
57DAP/52DAP	1.01035	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98729	0.645
17DAP/reference	1.0146	0.492
27DAP/reference	0.97996	0.654
39DAP/reference	0.98515	0.779
41DAP/reference	0.95982	0.542
42DAP/reference	0.95642	0.182
43DAP/reference	0.97551	0.653
47DAP/reference	0.92226	0.035
52DAP/reference	1.03078	1
57DAP/reference	0.90235	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98272	0.716
27DAP/17DAP	1.04155	0.826
39DAP/27DAP	1.05319	0.553
41DAP/39DAP	1.03005	0.663
42DAP/41DAP	0.99943	0.929
43DAP/42DAP	0.98633	0.729
47DAP/43DAP	0.95812	0.677
52DAP/47DAP	1.08405	0.666
57DAP/52DAP	1.00835	1
57DAP/7DAP	1.07822	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93855	0.203
17DAP/reference	0.96256	0.167
27DAP/reference	0.92858	0.055
39DAP/reference	0.97237	0.23
41DAP/reference	1.01443	0.678
42DAP/reference	0.9461	0.066
43DAP/reference	0.93924	0.145
47DAP/reference	0.93373	0.222
52DAP/reference	0.90773	0.012
57DAP/reference	0.97818	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0538	0.38
17DAP/reference	0.9879	0.693
27DAP/reference	1.0439	0.757
39DAP/reference	0.96945	0.497
41DAP/reference	0.95606	0.422
42DAP/reference	0.97997	0.433
43DAP/reference	1.03308	0.617
47DAP/reference	1.00706	0.965
52DAP/reference	1.00355	0.761
57DAP/reference	1.08204	0.075

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93502	0.042
17DAP/reference	0.98697	0.739
27DAP/reference	0.96977	0.302
39DAP/reference	0.95482	0.147
41DAP/reference	0.97766	0.264
42DAP/reference	0.92946	0.22
43DAP/reference	0.90474	0.15
47DAP/reference	0.97309	0.465
52DAP/reference	0.93766	0.36
57DAP/reference	0.75225	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97905	1
26DAP/20DAP	0.93408	0.317
34DAP/26DAP	1.02372	1
51DAP/34DAP	1.03257	0.746
52DAP/51DAP	1.00442	1
53DAP/52DAP	0.9863	0.924
55DAP/53DAP	1.01451	1
57DAP/55DAP	1.03071	0.969
62DAP/57DAP	1.1985	0.217
68DAP/62DAP	1.0705	0.899
68DAP/14DAP	1.22404	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06195	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.03621	0.058
Mature Green Tomato/Ripe Tomato	0.96148	0.66
Immature Eggplant/Mature Eggplant	0.83715	0.651
Ripe Pepper/Ripe Tomato	0.55736	0.224
Mature Eggplant/Ripe Tomato	0.81224	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03909	1
1-1-2/M82	1.12324	1
12-2/M82	0.90354	0.862
12-4/M82	0.95695	1
1-3/M82	0.90875	0.441
2-1-1/M82	1.07007	1
2-1/M82	1.07076
2-6/M82	0.96541	1
3-2/M82	1.01536	1
4-1-1/M82	0.9208	1
4-1/M82	1.02121	1
4-3-2/M82	0.81463	0.698
4-3/M82	1.01668	1
5-3/M82	0.97014	1
6-2/M82	0.93748	1
6-3/M82	0.9999	1
7-1/M82	1.0692
7-2/M82	0.9333	0.881
9-3-2/M82	0.87648	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0289	1
IL2-6/WTpooled	0.82938	0.473
IL7-5/WTpooled	1.01422	1
IL7-3/WTpooled	1.00581	1
IL12-4/WTpooled	1.14709	0.553
IL1-4/WTpooled	1.07761	0.426
WT/WTpooled	0.94547	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	0.91165	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0171	0.921
DC3000/delta hrp 6h	1.1885	1
DC3000/delta hrp 12h	0.79152	1
DC3000/delta hrp 24h	1.11496	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24637	0.16
DC3000 delta B/DC3000 delta AB	1.09963	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15808	1
Exp 36h	1.97143	0.489
Exp 60h	1.69926	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91468
Var 0h	0.6815	0.933
Var 12h I row2-row1	0.95819
Var 12h NI row2-row1	1.56716	1
Var 36h I row2-row1	1.23808	0.908
Var 36h NI row2-row1	0.82636
Var 60h I row2-row1	1.16388
Var 60h NI row2-row1	1.00293	1
Time course 0hI-0hNI	0.8601	0.3
Time course 12hI-12hNI	1.01161	1
Time course 36hI-36hNI	1.23301	0.147
Time course 60hI-60hNI	2.91583	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)	0.80787	0.246
transgenic ySAMdc/azygous control (breaker)	0.75932	0.251
transgenic ySAMdc/azygous control (red)	1.12378	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03267	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93439	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00447	1
Manapal/WT (break)	0.92348	1
Manapal/WT (red)	0.87436	0.36