Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.9.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97897	0.76
27DAP/17DAP	1.10409	0.859
39DAP/27DAP	1.1557	0.81
41DAP/39DAP	1.06576	1
42DAP/41DAP	1.13291	0.888
43DAP/42DAP	2.00449	0.038
47DAP/43DAP	1.26479	0.208
52DAP/47DAP	0.63825	0.09
57DAP/52DAP	0.92588	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76168	0.028
17DAP/reference	0.69083	0.007
27DAP/reference	0.85139	0.085
39DAP/reference	0.78415	0.03
41DAP/reference	0.66177	0.012
42DAP/reference	0.77379	0.023
43DAP/reference	1.12563	0.061
47DAP/reference	1.10882	0.161
52DAP/reference	0.98142	0.515
57DAP/reference	1.04138	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96955	0.732
27DAP/17DAP	1.3324	0.295
39DAP/27DAP	1.08766	0.707
41DAP/39DAP	1.14307	0.968
42DAP/41DAP	1.12641	0.836
43DAP/42DAP	0.94306	0.618
47DAP/43DAP	1.1418	0.581
52DAP/47DAP	0.92246	0.884
57DAP/52DAP	0.89837	0.514
57DAP/7DAP	0.91507	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01668	1
17DAP/reference	1.17012	0.07
27DAP/reference	1.4014	0.008
39DAP/reference	0.99636	0.64
41DAP/reference	1.11485	0.723
42DAP/reference	1.14311	0.405
43DAP/reference	1.20195	0.408
47DAP/reference	0.96129	0.504
52DAP/reference	1.04994	0.636
57DAP/reference	1.08563	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72589	0.043
17DAP/reference	0.63372	0.004
27DAP/reference	0.97469	0.537
39DAP/reference	0.9185	0.221
41DAP/reference	1.0971	0.406
42DAP/reference	0.91702	0.061
43DAP/reference	0.79113	0.111
47DAP/reference	0.74494	0.009
52DAP/reference	0.87528	0.025
57DAP/reference	0.63344	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15782	0.296
17DAP/reference	0.96258	0.579
27DAP/reference	1.53389	0.023
39DAP/reference	1.32493	0.01
41DAP/reference	1.21034	0.062
42DAP/reference	1.22203	0.049
43DAP/reference	1.19871	0.107
47DAP/reference	1.50449	0.031
52DAP/reference	1.39268	0.335
57DAP/reference	1.38752	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98257	1
26DAP/20DAP	1.71025	0.1
34DAP/26DAP	0.87446	0.675
51DAP/34DAP	1.95729	0.029
52DAP/51DAP	0.8047	1
53DAP/52DAP	1.37655
55DAP/53DAP	0.73121	0.144
57DAP/55DAP	0.70201	0.045
62DAP/57DAP	0.57943	0.007
68DAP/62DAP	3.35723	0.019
68DAP/14DAP	3.46701	0.03

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0796	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.52732	0.019
Immature Eggplant/Mature Eggplant	5.80628	0.05
Ripe Pepper/Ripe Tomato	0.39035	0.293
Mature Eggplant/Ripe Tomato	0.67821	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.23613	1
12-2/M82	N/A	N/A
12-4/M82	2.02764	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.19783
4-1-1/M82	N/A	N/A
4-1/M82	1.91036
4-3-2/M82	1.441	0.284
4-3/M82	N/A	N/A
5-3/M82	1.08992
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.58982
7-2/M82	1.05096
9-3-2/M82	1.81225	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8946	0.243
IL2-6/WTpooled	0.95827	1
IL7-5/WTpooled	0.80813	1
IL7-3/WTpooled	0.92631	0.418
IL12-4/WTpooled	0.93418	0.71
IL1-4/WTpooled	0.95516	0.834
WT/WTpooled	0.98374	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	1.30213	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98817	1
DC3000/delta hrp 6h	1.03726	0.777
DC3000/delta hrp 12h	1.0413	1
DC3000/delta hrp 24h	1.25631	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.4332	0.042
DC3000 delta B/DC3000 delta AB	1.46306	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91681	1
Exp 36h	1.49205	0.693
Exp 60h	1.29094	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01985	1
Var 0h	0.51701	0.339
Var 12h I row2-row1	1.19004	0.506
Var 12h NI row2-row1	1.14647	0.649
Var 36h I row2-row1	0.92989	1
Var 36h NI row2-row1	0.98555	0.852
Var 60h I row2-row1	0.69503	0.285
Var 60h NI row2-row1	1.01234	1
Time course 0hI-0hNI	1.09412	0.799
Time course 12hI-12hNI	1.15819	0.172
Time course 36hI-36hNI	1.31832	0.031
Time course 60hI-60hNI	4.15233	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)	1.31516	0.347
transgenic ySAMdc/azygous control (breaker)	0.66591	0.15
transgenic ySAMdc/azygous control (red)	0.91622	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10941	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8556	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80424	1
Manapal/WT (break)	0.83343	0.333
Manapal/WT (red)	1.09884	1