Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.7366	0.244
27DAP/17DAP	1.20329	0.804
39DAP/27DAP	0.82728	0.443
41DAP/39DAP	0.98412	0.866
42DAP/41DAP	1.18989	0.903
43DAP/42DAP	0.95324	0.813
47DAP/43DAP	1.11629	0.584
52DAP/47DAP	0.97784	0.88
57DAP/52DAP	0.89378	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89585	0.188
17DAP/reference	1.04567	0.384
27DAP/reference	1.03227	0.696
39DAP/reference	0.87963	0.022
41DAP/reference	1.0409	0.808
42DAP/reference	0.81343	0.002
43DAP/reference	1.11871	0.175
47DAP/reference	0.90033	0.046
52DAP/reference	0.85069	0.047
57DAP/reference	0.92504	0.294

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9527	0.595
27DAP/17DAP	1.22272	0.546
39DAP/27DAP	0.89295	0.563
41DAP/39DAP	1.14468	0.849
42DAP/41DAP	1.16994	0.446
43DAP/42DAP	0.94518	0.576
47DAP/43DAP	1.08092	0.822
52DAP/47DAP	0.84483	0.177
57DAP/52DAP	0.88106	0.359
57DAP/7DAP	1.05703	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57861	0.112
17DAP/reference	1.7404	0.009
27DAP/reference	1.68791	0.011
39DAP/reference	1.18103	0.297
41DAP/reference	1.03292	1
42DAP/reference	0.90812	0.136
43DAP/reference	0.95805	0.351
47DAP/reference	1.11341	0.377
52DAP/reference	0.83325	0.046
57DAP/reference	0.88574	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03133	0.66
17DAP/reference	1.00346	0.805
27DAP/reference	0.81517	0.026
39DAP/reference	0.84252	0.183
41DAP/reference	0.98414	0.531
42DAP/reference	0.841	0.014
43DAP/reference	1.07798	0.697
47DAP/reference	0.95905	0.359
52DAP/reference	1.06652	0.368
57DAP/reference	1.03416	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82328	0.098
17DAP/reference	1.09253	0.62
27DAP/reference	1.27669	0.029
39DAP/reference	1.01341	1
41DAP/reference	1.00418	0.754
42DAP/reference	1.01552	1
43DAP/reference	0.91189	0.267
47DAP/reference	0.90378	0.145
52DAP/reference	0.88585	0.415
57DAP/reference	0.81069	0.093

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10227	0.966
26DAP/20DAP	1.03516	1
34DAP/26DAP	0.95149	0.893
51DAP/34DAP	1.064	0.988
52DAP/51DAP	0.94877	1
53DAP/52DAP	1.09369	0.608
55DAP/53DAP	1.00301	0.917
57DAP/55DAP	0.7699	0.104
62DAP/57DAP	1.42655	0.868
68DAP/62DAP	1.06625	0.939
68DAP/14DAP	0.96051	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77454	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.31418
Mature Green Tomato/Ripe Tomato	1.30835	0.095
Immature Eggplant/Mature Eggplant	1.73719	0.058
Ripe Pepper/Ripe Tomato	0.75346	1
Mature Eggplant/Ripe Tomato	1.0282	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.76028	0.907
1-1-2/M82	1.06038	1
12-2/M82	1.13275	1
12-4/M82	0.8733	1
1-3/M82	2.34929
2-1-1/M82	0.64959	0.565
2-1/M82	0.7188
2-6/M82	0.64434	0.501
3-2/M82	N/A	N/A
4-1-1/M82	0.88576	1
4-1/M82	1.10404
4-3-2/M82	1.09559	0.508
4-3/M82	0.32551	0.292
5-3/M82	1.14656	0.496
6-2/M82	0.92766
6-3/M82	1.57329	1
7-1/M82	0.98461
7-2/M82	1.0139	1
9-3-2/M82	1.12542

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19042
IL2-6/WTpooled	0.64795	0.383
IL7-5/WTpooled	0.67178
IL7-3/WTpooled	1.10715	0.362
IL12-4/WTpooled	0.90774	1
IL1-4/WTpooled	1.00454	1
WT/WTpooled	1.0667	0.999

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	0.92205	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95627	1
DC3000/delta hrp 6h	0.87194	0.95
DC3000/delta hrp 12h	0.96238	1
DC3000/delta hrp 24h	0.61073	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0891	0.598
DC3000 delta B/DC3000 delta AB	0.75092	0.033

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.13324	0.693
Exp 60h	1.14477	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99997	1
Var 0h	0.85413	1
Var 12h I row2-row1	1.00887	1
Var 12h NI row2-row1	0.97272	0.82
Var 36h I row2-row1	1.01401	0.368
Var 36h NI row2-row1	1.02564	1
Var 60h I row2-row1	0.88584	0.285
Var 60h NI row2-row1	1.10775	0.904
Time course 0hI-0hNI	1.03994	0.852
Time course 12hI-12hNI	0.9422	0.515
Time course 36hI-36hNI	0.9431	0.33
Time course 60hI-60hNI	0.74122	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)	0.99219	0.789
transgenic ySAMdc/azygous control (breaker)	1.09498	1
transgenic ySAMdc/azygous control (red)	0.90034	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0135	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80256	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04335	1
Manapal/WT (break)	0.99231	1
Manapal/WT (red)	1.00022	1