Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.10.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94851	0.689
27DAP/17DAP	1.18626	0.845
39DAP/27DAP	0.76887	0.549
41DAP/39DAP	1.44625	0.222
42DAP/41DAP	1.02305	1
43DAP/42DAP	0.99397	0.937
47DAP/43DAP	1.06361	0.842
52DAP/47DAP	1.1053	0.787
57DAP/52DAP	0.94558	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97077	0.465
17DAP/reference	1.05767	0.08
27DAP/reference	0.97762	0.538
39DAP/reference	1.00505	0.706
41DAP/reference	0.97255	0.542
42DAP/reference	0.91152	0.018
43DAP/reference	1.03981	0.617
47DAP/reference	0.86754	0.012
52DAP/reference	0.81881	0.069
57DAP/reference	0.92399	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99487	0.847
27DAP/17DAP	1.0711	0.805
39DAP/27DAP	1.00827	0.862
41DAP/39DAP	1.10783	0.807
42DAP/41DAP	0.94453	0.511
43DAP/42DAP	1.02332	0.478
47DAP/43DAP	1.02145	0.897
52DAP/47DAP	0.94623	0.739
57DAP/52DAP	1.02054	0.899
57DAP/7DAP	1.14989	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94869	0.168
17DAP/reference	1.01658	0.477
27DAP/reference	0.98873	0.402
39DAP/reference	1.02369	0.46
41DAP/reference	0.96063	0.298
42DAP/reference	0.99897	0.791
43DAP/reference	1.07353	0.093
47DAP/reference	0.86801	0.168
52DAP/reference	0.99285	0.679
57DAP/reference	0.98505	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9791	0.688
17DAP/reference	0.98386	0.594
27DAP/reference	0.88519	0.139
39DAP/reference	0.85089	0.017
41DAP/reference	0.87106	0.098
42DAP/reference	0.94999	0.355
43DAP/reference	0.92416	0.344
47DAP/reference	0.9955	0.695
52DAP/reference	0.89309	0.031
57DAP/reference	1.06261	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99033	0.566
17DAP/reference	0.98968	0.751
27DAP/reference	0.95932	0.357
39DAP/reference	0.98959	0.643
41DAP/reference	0.94855	0.371
42DAP/reference	0.8707	0.172
43DAP/reference	0.90432	0.206
47DAP/reference	0.88716	0.093
52DAP/reference	0.97671	0.65
57DAP/reference	0.64949	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94488	0.961
26DAP/20DAP	0.878	0.317
34DAP/26DAP	1.07166	0.542
51DAP/34DAP	0.94221	0.64
52DAP/51DAP	0.94563	1
53DAP/52DAP	1.0479	0.806
55DAP/53DAP	1.03076	0.893
57DAP/55DAP	1.11765	0.393
62DAP/57DAP	1.11862	0.257
68DAP/62DAP	0.91804	0.722
68DAP/14DAP	0.89928	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96991	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.94842	0.569
Immature Eggplant/Mature Eggplant	9.49099	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	21.1328	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93409	0.944
1-1-2/M82	0.89286	1
12-2/M82	1.02628	1
12-4/M82	0.94641	1
1-3/M82	0.85126	0.501
2-1-1/M82	1.0869
2-1/M82	0.94816	0.519
2-6/M82	1.1248	0.695
3-2/M82	0.99191	1
4-1-1/M82	0.97829	1
4-1/M82	0.81253	1
4-3-2/M82	0.85915	0.698
4-3/M82	0.82865	0.72
5-3/M82	0.96842	1
6-2/M82	N/A	N/A
6-3/M82	0.88732	1
7-1/M82	0.95119
7-2/M82	0.92591	0.881
9-3-2/M82	0.83578	0.449

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	0.79451	0.543
IL1-4/WTpooled	1.26828	1
WT/WTpooled	1.20534	0.874

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	0.85308	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01512	0.921
DC3000/delta hrp 6h	1.06318	1
DC3000/delta hrp 12h	0.90808	1
DC3000/delta hrp 24h	1.61248	0.143

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.36127
DC3000 delta B/DC3000 delta AB	1.15372	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.47567	1
Exp 36h	1.7764	1
Exp 60h	0.85732	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03256	1
Var 0h	1.07313	0.936
Var 12h I row2-row1	1.10513	0.204
Var 12h NI row2-row1	0.89923	0.546
Var 36h I row2-row1	0.97154	1
Var 36h NI row2-row1	0.81444	0.382
Var 60h I row2-row1	1.37609	0.562
Var 60h NI row2-row1	1.22079	0.904
Time course 0hI-0hNI	0.99077	1
Time course 12hI-12hNI	1.03576	0.741
Time course 36hI-36hNI	0.93483	0.202
Time course 60hI-60hNI	1.02408	0.575

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)	1.42763	0.571
transgenic ySAMdc/azygous control (breaker)	0.91408	0.49
transgenic ySAMdc/azygous control (red)	1.13056	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9997	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91814	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74723	1
Manapal/WT (break)	0.83419	1
Manapal/WT (red)	0.74965	0.181