Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92792	0.496
27DAP/17DAP	0.80217	0.478
39DAP/27DAP	0.9426	0.631
41DAP/39DAP	1.21307	0.344
42DAP/41DAP	1.10107	0.931
43DAP/42DAP	1.01097	0.937
47DAP/43DAP	1.10995	0.727
52DAP/47DAP	0.80057	0.538
57DAP/52DAP	0.93395	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99234	0.693
17DAP/reference	1.04068	0.412
27DAP/reference	1.11677	0.103
39DAP/reference	1.06097	0.386
41DAP/reference	0.90417	0.049
42DAP/reference	0.88095	0.004
43DAP/reference	0.98364	0.708
47DAP/reference	0.98774	0.473
52DAP/reference	0.98522	0.546
57DAP/reference	1.0089	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0616	0.536
27DAP/17DAP	0.96586	0.537
39DAP/27DAP	0.98292	0.795
41DAP/39DAP	1.0734	0.59
42DAP/41DAP	1.00308	0.907
43DAP/42DAP	1.04444	0.478
47DAP/43DAP	0.98575	0.911
52DAP/47DAP	1.03642	0.851
57DAP/52DAP	0.9576	0.577
57DAP/7DAP	1.03656	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84747	0.062
17DAP/reference	0.82021	0.011
27DAP/reference	0.87736	0.016
39DAP/reference	0.93698	0.025
41DAP/reference	0.97423	0.412
42DAP/reference	0.90062	0.033
43DAP/reference	0.87494	0.011
47DAP/reference	0.92331	0.168
52DAP/reference	0.91965	0.126
57DAP/reference	0.85898	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9694	0.564
17DAP/reference	0.9204	0.23
27DAP/reference	0.89419	0.129
39DAP/reference	0.99583	0.603
41DAP/reference	0.90294	0.096
42DAP/reference	0.80878	0.023
43DAP/reference	0.93219	0.269
47DAP/reference	0.94654	0.221
52DAP/reference	1.00138	0.713
57DAP/reference	0.85516	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90022	0.074
17DAP/reference	0.91295	0.205
27DAP/reference	0.94213	0.078
39DAP/reference	0.89448	0.009
41DAP/reference	0.9091	0.119
42DAP/reference	0.82057	0.028
43DAP/reference	0.85089	0.081
47DAP/reference	0.88063	0.114
52DAP/reference	0.87037	0.25
57DAP/reference	0.76723	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14544	0.966
26DAP/20DAP	1.03865	0.905
34DAP/26DAP	1.10212	1
51DAP/34DAP	1.13894	0.118
52DAP/51DAP	0.9808	1
53DAP/52DAP	1.06687	0.868
55DAP/53DAP	0.87957	0.125
57DAP/55DAP	1.14637	0.643
62DAP/57DAP	1.11085
68DAP/62DAP	1.08784	0.767
68DAP/14DAP	1.63086	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86155	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51459	0.11
Mature Green Tomato/Ripe Tomato	1.96046	0.015
Immature Eggplant/Mature Eggplant	1.12989	0.439
Ripe Pepper/Ripe Tomato	5.01779	0.256
Mature Eggplant/Ripe Tomato	1.20863	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23181	0.877
1-1-2/M82	0.99143	1
12-2/M82	0.86599	0.678
12-4/M82	0.70079	0.319
1-3/M82	1.16384
2-1-1/M82	0.89584	1
2-1/M82	1.13533	1
2-6/M82	0.91759	1
3-2/M82	0.97273
4-1-1/M82	N/A	N/A
4-1/M82	0.89227	1
4-3-2/M82	0.76718	0.487
4-3/M82	0.86325	1
5-3/M82	1.49949	0.496
6-2/M82	0.92863	1
6-3/M82	1.2596	1
7-1/M82	1.19322	0.539
7-2/M82	0.94384	0.881
9-3-2/M82	0.83086	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79854	0.321
IL2-6/WTpooled	1.00259	1
IL7-5/WTpooled	1.18071	0.792
IL7-3/WTpooled	0.87371	0.298
IL12-4/WTpooled	0.98947	1
IL1-4/WTpooled	0.95472	0.834
WT/WTpooled	0.94208	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	0.97091	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.81713	0.62
DC3000/delta hrp 6h	0.93905	0.95
DC3000/delta hrp 12h	0.94968	1
DC3000/delta hrp 24h	0.90684	0.412

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89274	0.052
DC3000 delta B/DC3000 delta AB	0.88529	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.73798	1
Exp 36h	0.70103	0.406
Exp 60h	0.66588	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96177	1
Var 0h	0.87682	0.933
Var 12h I row2-row1	0.89737	0.514
Var 12h NI row2-row1	0.97885	0.906
Var 36h I row2-row1	0.98911	1
Var 36h NI row2-row1	1.01626	1
Var 60h I row2-row1	0.99576	1
Var 60h NI row2-row1	1.07913	0.904
Time course 0hI-0hNI	0.91117	0.323
Time course 12hI-12hNI	1.00364	1
Time course 36hI-36hNI	0.89796	0.024
Time course 60hI-60hNI	0.54772	0.006

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)	0.99842	1
transgenic ySAMdc/azygous control (breaker)	0.8914	0.173
transgenic ySAMdc/azygous control (red)	1.03204	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13284	0.051

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85615	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35741	0.14
Manapal/WT (break)	1.18573	1
Manapal/WT (red)	1.16581	0.413