Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26183	0.575
27DAP/17DAP	1.26338	0.744
39DAP/27DAP	0.57525	0.27
41DAP/39DAP	1.5585	0.295
42DAP/41DAP	1.01729	1
43DAP/42DAP	1.25161	0.746
47DAP/43DAP	1.19781	0.442
52DAP/47DAP	0.85959	0.615
57DAP/52DAP	1.07139	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96428	0.344
17DAP/reference	1.11452	0.055
27DAP/reference	1.07185	0.314
39DAP/reference	1.05727	0.386
41DAP/reference	1.26319	0.014
42DAP/reference	0.99861	0.587
43DAP/reference	1.02328	0.617
47DAP/reference	0.96402	0.258
52DAP/reference	0.95977	0.405
57DAP/reference	0.96646	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99594	0.801
27DAP/17DAP	1.22647	0.554
39DAP/27DAP	1.01172	1
41DAP/39DAP	1.03374	1
42DAP/41DAP	1.04395	0.858
43DAP/42DAP	1.11835	0.23
47DAP/43DAP	0.91553	0.701
52DAP/47DAP	0.99023	0.925
57DAP/52DAP	0.91151	0.188
57DAP/7DAP	1.09332	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99012	0.682
17DAP/reference	0.7901	0.011
27DAP/reference	0.78254	0.011
39DAP/reference	0.75388	0.021
41DAP/reference	0.83618	0.094
42DAP/reference	0.7968	0.058
43DAP/reference	0.84755	0.145
47DAP/reference	0.88154	0.383
52DAP/reference	0.95636	0.332
57DAP/reference	0.91377	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07063	0.172
17DAP/reference	0.96094	0.245
27DAP/reference	0.92367	0.304
39DAP/reference	0.87381	0.108
41DAP/reference	0.89466	0.16
42DAP/reference	0.9163	0.089
43DAP/reference	0.96085	0.414
47DAP/reference	0.98608	0.434
52DAP/reference	0.9525	0.28
57DAP/reference	1.05878	0.523

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91131	0.183
17DAP/reference	0.98837	0.763
27DAP/reference	0.88386	0.155
39DAP/reference	0.83674	0.025
41DAP/reference	0.93085	0.417
42DAP/reference	0.87681	0.287
43DAP/reference	1.07004	0.634
47DAP/reference	1.08394	0.171
52DAP/reference	0.87733	0.186
57DAP/reference	0.85988	0.177

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08291	0.945
26DAP/20DAP	0.85504	0.512
34DAP/26DAP	1.11717	0.819
51DAP/34DAP	0.95778	0.791
52DAP/51DAP	1.21335	0.092
53DAP/52DAP	1.15494	0.428
55DAP/53DAP	0.91088	0.686
57DAP/55DAP	1.43701	0.805
62DAP/57DAP	1.08569	1
68DAP/62DAP	1.02282	0.81
68DAP/14DAP	1.08195	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7462	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.48394	0.058
Mature Green Tomato/Ripe Tomato	1.48123	0.02
Immature Eggplant/Mature Eggplant	1.57202	0.054
Ripe Pepper/Ripe Tomato	4.23455	1
Mature Eggplant/Ripe Tomato	1.49783	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00616	1
1-1-2/M82	0.9564	1
12-2/M82	1.0017	1
12-4/M82	0.86145	1
1-3/M82	1.00548	1
2-1-1/M82	1.146	0.764
2-1/M82	1.18657	1
2-6/M82	0.95574	1
3-2/M82	0.91566
4-1-1/M82	0.96356	1
4-1/M82	0.82888	1
4-3-2/M82	0.93141	1
4-3/M82	1.12493	1
5-3/M82	0.93559	1
6-2/M82	1.07897	1
6-3/M82	1.08652	1
7-1/M82	1.01914	1
7-2/M82	1.01296	1
9-3-2/M82	0.82663	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.81641	0.358
IL7-5/WTpooled	0.43517	0.483
IL7-3/WTpooled	0.68057	0.418
IL12-4/WTpooled	0.87789	1
IL1-4/WTpooled	0.82437	0.699
WT/WTpooled	0.99379	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	1.26436

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92832	0.849
DC3000/delta hrp 6h	1.09942	1
DC3000/delta hrp 12h	1.0838	1
DC3000/delta hrp 24h	1.06052	0.71

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	0.8859	0.445

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29438	1
Exp 36h	0.83331	0.661
Exp 60h	0.80102	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9556
Var 0h	N/A	N/A
Var 12h I row2-row1	0.86527	0.77
Var 12h NI row2-row1	0.76073	0.627
Var 36h I row2-row1	0.82654	1
Var 36h NI row2-row1	1.12648	1
Var 60h I row2-row1	1.08718	1
Var 60h NI row2-row1	2.37754	0.904
Time course 0hI-0hNI	1.26838	0.852
Time course 12hI-12hNI	0.91254	0.847
Time course 36hI-36hNI	0.92896	0.38
Time course 60hI-60hNI	1.13135	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)	0.96738	0.286
transgenic ySAMdc/azygous control (breaker)	1.19684	0.248
transgenic ySAMdc/azygous control (red)	1.17871	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96336	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13908	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.4701	0.14
Manapal/WT (break)	1.02662	1
Manapal/WT (red)	1.02731	1