Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.10.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13219	0.681
27DAP/17DAP	1.51387	0.537
39DAP/27DAP	0.99856	0.733
41DAP/39DAP	1.24732	0.367
42DAP/41DAP	0.96077	1
43DAP/42DAP	1.04221	1
47DAP/43DAP	1.09814	0.889
52DAP/47DAP	1.16497	0.869
57DAP/52DAP	0.88109	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94413	0.402
17DAP/reference	0.95018	0.503
27DAP/reference	0.886	0.163
39DAP/reference	0.97616	0.691
41DAP/reference	0.93351	0.341
42DAP/reference	0.90255	0.064
43DAP/reference	0.97848	0.708
47DAP/reference	0.91279	0.161
52DAP/reference	0.87579	0.147
57DAP/reference	0.96136	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79939	0.121
27DAP/17DAP	1.13441	0.533
39DAP/27DAP	1.19782	0.292
41DAP/39DAP	0.98482	0.945
42DAP/41DAP	1.12797	0.263
43DAP/42DAP	1.23583	0.066
47DAP/43DAP	0.91773	0.588
52DAP/47DAP	0.70142	0.135
57DAP/52DAP	1.02827	0.818
57DAP/7DAP	1.5771

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99917	0.758
17DAP/reference	0.90825	0.082
27DAP/reference	0.87593	0.015
39DAP/reference	0.97675	0.474
41DAP/reference	0.84062	0.033
42DAP/reference	0.85119	0.151
43DAP/reference	0.90798	0.061
47DAP/reference	0.97843	0.671
52DAP/reference	0.91509	0.163
57DAP/reference	0.85705	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.144	0.443
17DAP/reference	0.86822	0.23
27DAP/reference	1.31649	0.497
39DAP/reference	1.13986	0.477
41DAP/reference	1.50119	0.129
42DAP/reference	1.06643	1
43DAP/reference	1.14054	0.279
47DAP/reference	0.88692	0.06
52DAP/reference	0.89119	0.187
57DAP/reference	0.9262	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99181	0.699
17DAP/reference	0.9775	0.592
27DAP/reference	1.11298	0.34
39DAP/reference	0.88294	0.101
41DAP/reference	0.96688	0.56
42DAP/reference	1.08612	0.481
43DAP/reference	0.89913	0.267
47DAP/reference	0.88268	0.278
52DAP/reference	0.86986	0.22
57DAP/reference	0.88718	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03545	1
26DAP/20DAP	1.10252	1
34DAP/26DAP	1.57572	0.819
51DAP/34DAP	1.15872	0.795
52DAP/51DAP	0.92036	1
53DAP/52DAP	1.72242	0.296
55DAP/53DAP	0.80179	0.111
57DAP/55DAP	1.10728	0.584
62DAP/57DAP	0.89303	0.681
68DAP/62DAP	0.82503	0.406
68DAP/14DAP	1.03965	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.614	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4837	0.131
Mature Green Tomato/Ripe Tomato	1.28702	0.948
Immature Eggplant/Mature Eggplant	0.82582	0.329
Ripe Pepper/Ripe Tomato	0.76264
Mature Eggplant/Ripe Tomato	0.28395	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14337	0.877
1-1-2/M82	0.97214	1
12-2/M82	0.81995	0.678
12-4/M82	0.95233	1
1-3/M82	1.34964
2-1-1/M82	1.04044	1
2-1/M82	1.17751	0.188
2-6/M82	1.49977	0.329
3-2/M82	1.02137	0.463
4-1-1/M82	1.5673	0.876
4-1/M82	1.1783	1
4-3-2/M82	1.32971	0.508
4-3/M82	1.4427	0.268
5-3/M82	1.00607	1
6-2/M82	1.34955
6-3/M82	1.00266	1
7-1/M82	0.68606	0.803
7-2/M82	N/A	N/A
9-3-2/M82	1.18694

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96905	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.02046	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.00437
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	1.12113	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06806	0.914
DC3000/delta hrp 6h	0.97638	0.95
DC3000/delta hrp 12h	1.13883	1
DC3000/delta hrp 24h	1.3378	0.232

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	1.10178

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92103	1
Exp 36h	0.89422	0.699
Exp 60h	0.79603	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0327	1
Var 0h	0.9816	0.339
Var 12h I row2-row1	0.89746	0.363
Var 12h NI row2-row1	0.94973	0.713
Var 36h I row2-row1	1.02535	1
Var 36h NI row2-row1	0.95174	0.743
Var 60h I row2-row1	0.93811	0.832
Var 60h NI row2-row1	0.84832	0.932
Time course 0hI-0hNI	1.00623	1
Time course 12hI-12hNI	0.93953	0.316
Time course 36hI-36hNI	0.90672	0.153
Time course 60hI-60hNI	0.87909	0.161

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)	0.88665	0.267
transgenic ySAMdc/azygous control (breaker)	1.09443	0.248
transgenic ySAMdc/azygous control (red)	1.12159	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09931	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93234	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35436	0.096
Manapal/WT (break)	1.01682	1
Manapal/WT (red)	1.06393	0.413