Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.14.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01694	0.951
27DAP/17DAP	0.8501	0.609
39DAP/27DAP	1.31704	0.416
41DAP/39DAP	1.03077	0.844
42DAP/41DAP	0.74295	0.397
43DAP/42DAP	0.80331	0.467
47DAP/43DAP	0.89792	0.645
52DAP/47DAP	1.07327	0.976
57DAP/52DAP	0.77505	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62202	0.034
17DAP/reference	0.4935	0.008
27DAP/reference	0.82303	0.163
39DAP/reference	0.59617	0.015
41DAP/reference	0.42139	0.009
42DAP/reference	0.83026	0.048
43DAP/reference	0.71355	0.014
47DAP/reference	0.93734	0.258
52DAP/reference	1.45504	0.05
57DAP/reference	1.31386	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2292	0.168
27DAP/17DAP	0.84946	0.648
39DAP/27DAP	0.82838	0.243
41DAP/39DAP	1.18488	0.921
42DAP/41DAP	1.41306	0.009
43DAP/42DAP	0.75444	0.042
47DAP/43DAP	0.82026	0.229
52DAP/47DAP	2.35065	0.05
57DAP/52DAP	2.86785	0.036
57DAP/7DAP	2.43815	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91519	0.095
17DAP/reference	0.77083	0.013
27DAP/reference	0.862	0.017
39DAP/reference	0.8824	0.049
41DAP/reference	0.89575	0.073
42DAP/reference	0.85778	0.031
43DAP/reference	0.75322	0.015
47DAP/reference	0.88855	0.222
52DAP/reference	0.7226	0.012
57DAP/reference	0.66473	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59796	0.026
17DAP/reference	0.50626	0.006
27DAP/reference	1.01796	0.598
39DAP/reference	1.39935	0.316
41DAP/reference	1.09272	1
42DAP/reference	1.15026	0.121
43DAP/reference	0.67784	0.058
47DAP/reference	0.70451	0.015
52DAP/reference	0.88984	0.086
57DAP/reference	0.46214	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93329	0.197
17DAP/reference	0.91907	0.462
27DAP/reference	0.71497	0.024
39DAP/reference	0.8591	0.033
41DAP/reference	0.84867	0.058
42DAP/reference	1.00167	0.816
43DAP/reference	1.23397	0.803
47DAP/reference	0.9548	0.452
52DAP/reference	0.69967	0.05
57DAP/reference	2.28639	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.927	1
26DAP/20DAP	3.43264	0.924
34DAP/26DAP	5.52616	0.819
51DAP/34DAP	2.22742	0.829
52DAP/51DAP	6.99834	0.035
53DAP/52DAP	0.61855	0.049
55DAP/53DAP	1.58855	0.039
57DAP/55DAP	0.82723	0.583
62DAP/57DAP	2.4525	0.003
68DAP/62DAP	11.3664	0.007
68DAP/14DAP	18.0478	0.016

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.13096	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.78118	0.058
Mature Green Tomato/Ripe Tomato	2.99693	0.018
Immature Eggplant/Mature Eggplant	0.94305	0.594
Ripe Pepper/Ripe Tomato	0.45072	0.293
Mature Eggplant/Ripe Tomato	3.29173	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09003	0.536
1-1-2/M82	1.07289	1
12-2/M82	0.96381	0.955
12-4/M82	0.99782	1
1-3/M82	0.87345	0.441
2-1-1/M82	N/A	N/A
2-1/M82	0.85427
2-6/M82	0.98522	1
3-2/M82	1.10966
4-1-1/M82	0.89014
4-1/M82	1.16834
4-3-2/M82	0.73574	0.487
4-3/M82	0.57027	0.273
5-3/M82	0.97558	1
6-2/M82	N/A	N/A
6-3/M82	0.91151
7-1/M82	0.75126
7-2/M82	0.9099	0.553
9-3-2/M82	0.9411

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79614	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.70004	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.83193
IL1-4/WTpooled	1.30761	1
WT/WTpooled	N/A	N/A

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	1.01326	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04729	0.914
DC3000/delta hrp 6h	0.97498	0.95
DC3000/delta hrp 12h	1.0664	1
DC3000/delta hrp 24h	0.97094	0.831

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07731	0.208
DC3000 delta B/DC3000 delta AB	1.19921	0.332

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9169	1
Exp 36h	0.70023	0.321
Exp 60h	0.88781	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01765	1
Var 0h	0.85497	1
Var 12h I row2-row1	0.70107	0.514
Var 12h NI row2-row1	1.12247	1
Var 36h I row2-row1	1.23676	1
Var 36h NI row2-row1	1.88229	0.253
Var 60h I row2-row1	0.77335	0.285
Var 60h NI row2-row1	0.97036	1
Time course 0hI-0hNI	0.80398	0.204
Time course 12hI-12hNI	1.09064	1
Time course 36hI-36hNI	0.93079	0.312
Time course 60hI-60hNI	0.50703	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)	0.87452	0.409
transgenic ySAMdc/azygous control (breaker)	0.9798	1
transgenic ySAMdc/azygous control (red)	1.03592	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02817	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.64467	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83792	1
Manapal/WT (break)	1.47096	1
Manapal/WT (red)	0.82954	0.424