Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.7.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2114	0.512
27DAP/17DAP	0.54509	0.031
39DAP/27DAP	0.89974	0.573
41DAP/39DAP	0.73047	0.177
42DAP/41DAP	0.93258	1
43DAP/42DAP	1.26893	0.793
47DAP/43DAP	1.18644	0.555
52DAP/47DAP	1.39098	0.335
57DAP/52DAP	1.04277	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64725	0.054
17DAP/reference	0.52674	0.01
27DAP/reference	0.48489	0.015
39DAP/reference	0.56015	0.023
41DAP/reference	0.39852	0.009
42DAP/reference	0.41639	0.001
43DAP/reference	0.36223	0.013
47DAP/reference	0.35705	0.001
52DAP/reference	0.38496	0.014
57DAP/reference	0.41846	0.006

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.67546	0.053
27DAP/17DAP	0.75597	0.206
39DAP/27DAP	0.5605	0.034
41DAP/39DAP	1.17442	0.214
42DAP/41DAP	1.07507	0.783
43DAP/42DAP	0.73536	0.022
47DAP/43DAP	0.89005	0.387
52DAP/47DAP	1.94831	0.048
57DAP/52DAP	2.35499	0.029
57DAP/7DAP	0.97562	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98394	0.613
17DAP/reference	0.73462	0.013
27DAP/reference	0.37698	0.01
39DAP/reference	0.42197	0.011
41DAP/reference	0.2957	0.009
42DAP/reference	0.2562	0.01
43DAP/reference	0.21948	0.009
47DAP/reference	0.30278	0.035
52DAP/reference	0.27391	0.01
57DAP/reference	0.31259	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.47732	0.007
17DAP/reference	0.45327	0.006
27DAP/reference	0.66192	0.029
39DAP/reference	0.3886	0.01
41DAP/reference	0.4675	0.006
42DAP/reference	0.41847	0.011
43DAP/reference	0.26336	0.002
47DAP/reference	0.38264	0.007
52DAP/reference	0.27546	0.003
57DAP/reference	0.2456	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.01779	0.016
17DAP/reference	1.90047	0.151
27DAP/reference	1.39736	0.036
39DAP/reference	1.06885	0.935
41DAP/reference	0.69956	0.026
42DAP/reference	0.43385	0.015
43DAP/reference	0.47054	0.016
47DAP/reference	0.35402	0.004
52DAP/reference	0.29022	0.047
57DAP/reference	1.05975	0.79

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1472	0.966
26DAP/20DAP	0.94947	1
34DAP/26DAP	1.3307	1
51DAP/34DAP	0.57298	0.061
52DAP/51DAP	2.70216	0.039
53DAP/52DAP	0.6237	0.049
55DAP/53DAP	1.61542	0.039
57DAP/55DAP	0.52626	0.059
62DAP/57DAP	1.4287	0.8
68DAP/62DAP	0.76921	0.641
68DAP/14DAP	0.55983	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.23348	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.83378	0.058
Mature Green Tomato/Ripe Tomato	1.02306	0.835
Immature Eggplant/Mature Eggplant	0.44327	0.057
Ripe Pepper/Ripe Tomato	7.00045	1
Mature Eggplant/Ripe Tomato	11.3958	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99489	1
1-1-2/M82	0.99633	1
12-2/M82	N/A	N/A
12-4/M82	0.96156	1
1-3/M82	0.88376	0.501
2-1-1/M82	1.13263
2-1/M82	N/A	N/A
2-6/M82	1.03134	1
3-2/M82	0.85645
4-1-1/M82	0.96434	1
4-1/M82	1.57772	0.853
4-3-2/M82	1.67356	0.508
4-3/M82	1.14381
5-3/M82	1.25397	1
6-2/M82	1.02853
6-3/M82	N/A	N/A
7-1/M82	1.24127	0.925
7-2/M82	1.2036	0.385
9-3-2/M82	1.55784	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.77447	0.358
IL7-5/WTpooled	0.73767
IL7-3/WTpooled	0.77558	0.418
IL12-4/WTpooled	0.86344	0.71
IL1-4/WTpooled	0.97654	0.699
WT/WTpooled	1.00814	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	0.99546	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93999	1
DC3000/delta hrp 6h	0.95434	0.95
DC3000/delta hrp 12h	0.54089	1
DC3000/delta hrp 24h	0.86635	0.564

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.67935	0.042
DC3000 delta B/DC3000 delta AB	0.50144	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96956	1
Exp 36h	0.86546	0.749
Exp 60h	0.8566	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9674	1
Var 0h	0.96142	1
Var 12h I row2-row1	0.95971	0.77
Var 12h NI row2-row1	0.99146	0.488
Var 36h I row2-row1	0.90444	0.805
Var 36h NI row2-row1	0.9374	0.329
Var 60h I row2-row1	1.3906	0.562
Var 60h NI row2-row1	1.06029	0.904
Time course 0hI-0hNI	0.98223	0.935
Time course 12hI-12hNI	1.05646	0.599
Time course 36hI-36hNI	1.05139	0.316
Time course 60hI-60hNI	0.47879	0.026

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)	1.11198	0.748
transgenic ySAMdc/azygous control (breaker)	2.67268	0.165
transgenic ySAMdc/azygous control (red)	1.0725	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.46137	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.44969	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	15.1025	0.084
Manapal/WT (break)	8.34007	0.123
Manapal/WT (red)	1.30505	1