Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.7.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06784	0.932
27DAP/17DAP	1.0378	0.902
39DAP/27DAP	1.03991	0.899
41DAP/39DAP	1.0337	0.96
42DAP/41DAP	0.91401	0.774
43DAP/42DAP	1.02569	1
47DAP/43DAP	1.09891	0.633
52DAP/47DAP	0.85754	0.605
57DAP/52DAP	0.95799	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01777	1
17DAP/reference	0.98316	0.597
27DAP/reference	0.96037	0.275
39DAP/reference	1.01683	0.393
41DAP/reference	1.0021	1
42DAP/reference	1.03452	0.252
43DAP/reference	1.01684	0.812
47DAP/reference	1.0093	1
52DAP/reference	0.9679	0.405
57DAP/reference	0.9714	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8819	0.289
27DAP/17DAP	1.07007	0.976
39DAP/27DAP	0.9339	0.556
41DAP/39DAP	1.00567	1
42DAP/41DAP	0.91105	0.436
43DAP/42DAP	1.17005	0.664
47DAP/43DAP	0.93272	0.525
52DAP/47DAP	1.07206	0.799
57DAP/52DAP	1.01471	0.984
57DAP/7DAP	0.91174	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08267	0.664
17DAP/reference	1.1236	0.822
27DAP/reference	1.34437	0.107
39DAP/reference	0.91125	0.012
41DAP/reference	1.22993	0.023
42DAP/reference	0.96491	0.415
43DAP/reference	1.0372	0.873
47DAP/reference	0.9905	1
52DAP/reference	1.30845	0.017
57DAP/reference	1.14338	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06418	0.687
17DAP/reference	1.17592	0.01
27DAP/reference	1.19189	0.041
39DAP/reference	1.14107	0.025
41DAP/reference	1.15453	0.277
42DAP/reference	1.08187	0.369
43DAP/reference	1.12759	0.761
47DAP/reference	1.03614	0.527
52DAP/reference	1.12741	0.03
57DAP/reference	1.08661	0.075

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38137	0.134
17DAP/reference	1.07416	0.675
27DAP/reference	1.10756	0.51
39DAP/reference	1.06814	0.365
41DAP/reference	1.21434	0.125
42DAP/reference	1.15693	0.347
43DAP/reference	1.03889	0.572
47DAP/reference	0.96569	0.174
52DAP/reference	1.0565	0.759
57DAP/reference	1.08498	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9478	1
26DAP/20DAP	1.04044	1
34DAP/26DAP	1.18876	0.542
51DAP/34DAP	1.08587	0.524
52DAP/51DAP	1.40331	0.08
53DAP/52DAP	0.95993	0.835
55DAP/53DAP	1.08824	0.275
57DAP/55DAP	0.9046	0.644
62DAP/57DAP	1.00082	1
68DAP/62DAP	0.95433	0.769
68DAP/14DAP	1.03222	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98938	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2719	0.176
Mature Green Tomato/Ripe Tomato	0.98773	0.774
Immature Eggplant/Mature Eggplant	0.36505	0.062
Ripe Pepper/Ripe Tomato	1.0944	1
Mature Eggplant/Ripe Tomato	5.72556	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.01004	1
12-2/M82	N/A	N/A
12-4/M82	1.20829
1-3/M82	N/A	N/A
2-1-1/M82	0.84363
2-1/M82	N/A	N/A
2-6/M82	0.97017
3-2/M82	1.00545
4-1-1/M82	N/A	N/A
4-1/M82	1.22706	1
4-3-2/M82	1.06013
4-3/M82	N/A	N/A
5-3/M82	0.9827	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.8456	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14035	0.277
IL2-6/WTpooled	1.41297	0.659
IL7-5/WTpooled	1.06264	1
IL7-3/WTpooled	0.91149	1
IL12-4/WTpooled	1.08411	0.785
IL1-4/WTpooled	0.90923	0.834
WT/WTpooled	1.00872	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	1.3224	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01121	1
DC3000/delta hrp 6h	1.10119	1
DC3000/delta hrp 12h	1.01437	1
DC3000/delta hrp 24h	0.52255	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07479	0.29
DC3000 delta B/DC3000 delta AB	1.05234	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00699	1
Exp 36h	0.76673	0.589
Exp 60h	0.69572	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93999	1
Var 0h	1.06325	1
Var 12h I row2-row1	0.9337	0.338
Var 12h NI row2-row1	0.98361	0.713
Var 36h I row2-row1	0.95733	1
Var 36h NI row2-row1	1.07914	1
Var 60h I row2-row1	1.05574	0.562
Var 60h NI row2-row1	1.01384	1
Time course 0hI-0hNI	0.97859	0.906
Time course 12hI-12hNI	0.99913	1
Time course 36hI-36hNI	0.9868	0.504
Time course 60hI-60hNI	0.62575	0.005

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)	0.71322	0.227
transgenic ySAMdc/azygous control (breaker)	1.17534	1
transgenic ySAMdc/azygous control (red)	1.28576	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95686	0.093

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22556	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26191	0.307
Manapal/WT (break)	0.63001	0.299
Manapal/WT (red)	1.18257	0.413